Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 43 of 109
Found at i:14045801 original size:16 final size:16
Alignment explanation
Indices: 14045777--14045841 Score: 112
Period size: 16 Copynumber: 4.1 Consensus size: 16
14045767 TTGAATTGCT
14045777 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
14045793 ATTATGCCTCTATTCC
1 ATTACGCCTCTATTCC
*
14045809 AGTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
14045825 ATTACGCCTCTATTCC
1 ATTACGCCTCTATTCC
14045841 A
1 A
14045842 ATACAGCGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 45 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (16 bp):
ATTACGCCTCTATTCC
Found at i:14052350 original size:70 final size:72
Alignment explanation
Indices: 14052259--14052403 Score: 240
Period size: 71 Copynumber: 2.0 Consensus size: 72
14052249 AAAAACATTT
* *
14052259 TTTTGAAGTAATATTTTATGTATTAAGTAATTTTTT-CAAGTTTTATTAATTACTTTTAAAATAT
1 TTTTGAAGTAATATTTTATGTATTAAGTAATTTTTTGCAAGTTTTATTAATTACTTTAAAAACAT
*
14052323 TTTCATG
66 TTTCACG
*
14052330 TTTT-AAGTAGTATTTTATGTATTAAGTAATTTTTTGCAAGTTTTATTAATTACTTTAAAAACAT
1 TTTTGAAGTAATATTTTATGTATTAAGTAATTTTTTGCAAGTTTTATTAATTACTTTAAAAACAT
14052394 TTTCACG
66 TTTCACG
14052401 TTT
1 TTT
14052404 GATGTATTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
70 30 0.43
71 39 0.57
ACGTcount: A:0.32, C:0.06, G:0.09, T:0.54
Consensus pattern (72 bp):
TTTTGAAGTAATATTTTATGTATTAAGTAATTTTTTGCAAGTTTTATTAATTACTTTAAAAACAT
TTTCACG
Found at i:14052354 original size:19 final size:20
Alignment explanation
Indices: 14052320--14052357 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
14052310 ACTTTTAAAA
*
14052320 TATTTTCATGTTTTAAGTAG
1 TATTTTCATGTATTAAGTAG
14052340 TATTTT-ATGTATTAAGTA
1 TATTTTCATGTATTAAGTA
14052358 ATTTTTTGCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.29, C:0.03, G:0.13, T:0.55
Consensus pattern (20 bp):
TATTTTCATGTATTAAGTAG
Found at i:14052364 original size:19 final size:19
Alignment explanation
Indices: 14052322--14052364 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
14052312 TTTTAAAATA
* * *
14052322 TTTTCATGTTTTAAGTAGT
1 TTTTTATGTATTAAGTAAT
*
14052341 ATTTTATGTATTAAGTAAT
1 TTTTTATGTATTAAGTAAT
14052360 TTTTT
1 TTTTT
14052365 GCAAGTTTTA
Statistics
Matches: 19, Mismatches: 5, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (19 bp):
TTTTTATGTATTAAGTAAT
Found at i:14053188 original size:17 final size:17
Alignment explanation
Indices: 14053168--14053212 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
14053158 CATTCTCCTA
14053168 ATTCTCTCAATTTATTT
1 ATTCTCTCAATTTATTT
*
14053185 ATTCTCTCAA-CTATTT
1 ATTCTCTCAATTTATTT
*
14053201 AGT-TCTCAATTT
1 ATTCTCTCAATTT
14053213 TTCATTCATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
15 6 0.25
16 8 0.33
17 10 0.42
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.53
Consensus pattern (17 bp):
ATTCTCTCAATTTATTT
Found at i:14053190 original size:15 final size:17
Alignment explanation
Indices: 14053170--14053212 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
14053160 TTCTCCTAAT
*
14053170 TCTCTCAATTTATTTAT
1 TCTCTCAATTTATTTAG
*
14053187 TCTCTCAA-CTATTTAG
1 TCTCTCAATTTATTTAG
14053203 T-TCTCAATTT
1 TCTCTCAATTT
14053213 TTCATTCATT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 6 0.27
16 8 0.36
17 8 0.36
ACGTcount: A:0.23, C:0.21, G:0.02, T:0.53
Consensus pattern (17 bp):
TCTCTCAATTTATTTAG
Found at i:14054771 original size:6 final size:6
Alignment explanation
Indices: 14054681--14054771 Score: 54
Period size: 6 Copynumber: 15.8 Consensus size: 6
14054671 CAAGATAAAC
* *
14054681 ATTAA- ATTAAA ATTAAT ATTAAG A-TAAT CACTTTAAT ATTAA- ATTAAT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT -A--TTAAT ATTAAT ATTAAT
* *
14054729 A-TAAT ATTCAT ATTAAT A--AAT A-TAAG ATTAA- ATTTAAT ATTAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT A-TTAAT ATTAA
14054772 ATCTTATTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
4 4 0.06
5 22 0.32
6 37 0.54
7 1 0.01
8 1 0.01
9 4 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (6 bp):
ATTAAT
Found at i:14054808 original size:131 final size:131
Alignment explanation
Indices: 14054574--14055178 Score: 1103
Period size: 131 Copynumber: 4.6 Consensus size: 131
14054564 GATTAAACTT
14054574 TAATCACTTTAATATTAAATTAATATAATATTCATATTAATAAATATAAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATATAATATTCATATTAATAAATATAAGATTAAATTTAATATT
14054639 AAATCTTATTAAAAGAATAGAATGTTTATCTACAAGATAAACATTAAATTAAAATTAATATTAAG
66 AAATCTTATTAAAAGAATAGAATGTTTATCTACAAGATAAACATTAAATTAAAATTAATATTAAG
14054704 A
131 A
14054705 TAATCACTTTAATATTAAATTAATATAATATTCATATTAATAAATATAAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATATAATATTCATATTAATAAATATAAGATTAAATTTAATATT
14054770 AAATCTTATTAAAAGAATAGAATGTTTATCTACAAGATAAACATTAAATTAAAATTAATATTAAG
66 AAATCTTATTAAAAGAATAGAATGTTTATCTACAAGATAAACATTAAATTAAAATTAATATTAAG
14054835 A
131 A
14054836 TAATCACTTTAATATTAAATTAATATAATATTCATATTAATAAATATAAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATATAATATTCATATTAATAAATATAAGATTAAATTTAATATT
14054901 AAATCTTATTAAAAGAATAGAATGTTTATCTACAAGATAAACATTAAATTAAAATTAATATTAAG
66 AAATCTTATTAAAAGAATAGAATGTTTATCTACAAGATAAACATTAAATTAAAATTAATATTAAG
14054966 A
131 A
14054967 TAATCACTTTAATATTAAATTAATATAATATTCATATTAATAAATATAAGATTAAATTTAATATT
1 TAATCACTTTAATATTAAATTAATATAATATTCATATTAATAAATATAAGATTAAATTTAATATT
14055032 AAATCTTATTAAAAGAATAGAATGTTTATCTACAAGATAAACATTAAATTAAAATTAATATTAAG
66 AAATCTTATTAAAAGAATAGAATGTTTATCTACAAGATAAACATTAAATTAAAATTAATATTAAG
14055097 A
131 A
* * * * *
14055098 TAATCACTTTAATATTAAATCAATAAAATATAC-T-TAAGATAAGTATTAA-ATTAAATTTAATA
1 TAATCACTTTAATATTAAATTAATATAATATTCATATTA-ATAAATA-TAAGATTAAATTTAATA
*
14055160 TTAAA-C-TATTAAAATAATA
64 TTAAATCTTATTAAAAGAATA
14055179 TTATTTTTGG
Statistics
Matches: 466, Mismatches: 6, Indels: 7
0.97 0.01 0.01
Matches are distributed among these distances:
128 12 0.03
129 3 0.01
130 25 0.05
131 426 0.91
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.39
Consensus pattern (131 bp):
TAATCACTTTAATATTAAATTAATATAATATTCATATTAATAAATATAAGATTAAATTTAATATT
AAATCTTATTAAAAGAATAGAATGTTTATCTACAAGATAAACATTAAATTAAAATTAATATTAAG
A
Found at i:14054902 original size:6 final size:6
Alignment explanation
Indices: 14054812--14054902 Score: 54
Period size: 6 Copynumber: 15.8 Consensus size: 6
14054802 CAAGATAAAC
* *
14054812 ATTAA- ATTAAA ATTAAT ATTAAG A-TAAT CACTTTAAT ATTAA- ATTAAT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT -A--TTAAT ATTAAT ATTAAT
* *
14054860 A-TAAT ATTCAT ATTAAT A--AAT A-TAAG ATTAA- ATTTAAT ATTAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT A-TTAAT ATTAA
14054903 ATCTTATTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
4 4 0.06
5 22 0.32
6 37 0.54
7 1 0.01
8 1 0.01
9 4 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (6 bp):
ATTAAT
Found at i:14055033 original size:6 final size:6
Alignment explanation
Indices: 14054943--14055033 Score: 54
Period size: 6 Copynumber: 15.8 Consensus size: 6
14054933 CAAGATAAAC
* *
14054943 ATTAA- ATTAAA ATTAAT ATTAAG A-TAAT CACTTTAAT ATTAA- ATTAAT
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT -A--TTAAT ATTAAT ATTAAT
* *
14054991 A-TAAT ATTCAT ATTAAT A--AAT A-TAAG ATTAA- ATTTAAT ATTAA
1 ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT ATTAAT A-TTAAT ATTAA
14055034 ATCTTATTAA
Statistics
Matches: 69, Mismatches: 6, Indels: 21
0.72 0.06 0.22
Matches are distributed among these distances:
4 4 0.06
5 22 0.32
6 37 0.54
7 1 0.01
8 1 0.01
9 4 0.06
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (6 bp):
ATTAAT
Found at i:14075319 original size:618 final size:619
Alignment explanation
Indices: 14074132--14075369 Score: 2451
Period size: 618 Copynumber: 2.0 Consensus size: 619
14074122 TTTATCTACT
14074132 ATTAAATTGTCTGTTTGCTTATTAGGGGATTACACACTGAATTTTTGTAAACTCACCCCTCTATT
1 ATTAAATTGTCTGTTTGCTTATTAGGGGATTACACACTGAATTTTTGTAAACTCACCCCTCTATT
14074197 TAACTGTACAGGTAATCCCTATTAGTAGGCGGGTCGGTGCTGCGAGGGACTCGAAGGTGGCCACA
66 TAACTGTACAGGTAATCCCTATTAGTAGGCGGGTCGGTGCTGCGAGGGACTCGAAGGTGGCCACA
14074262 CTACTACAGCTGTTCTACACTTGCTTTTACTTAAATTTAAATTTTGTGTTGGGTTTTGTTTATGT
131 CTACTACAGCTGTTCTACACTTGCTTTTACTTAAATTTAAATTTTGTGTTGGGTTTTGTTTATGT
14074327 AATAAGTCCATTTATGATTGTTTAAAATTTTAATTGGGTTTTTACTTACTTATTTTAAATTGCTA
196 AATAAGTCCATTTATGATTGTTTAAAATTTTAATTGGGTTTTTACTTACTTATTTTAAATTGCTA
14074392 ATGTAGGAGAAGATGAATTTACAAAACAATTACTGTTTTCAAAGACACGCAATTTAAACATTAGA
261 ATGTAGGAGAAGATGAATTTACAAAACAATTACTGTTTTCAAAGACACGCAATTTAAACATTAGA
14074457 GTTTTCAAAAGCTTTCGCGATTTTAGATCAACCTATAATAACAATGGTAGCTAACAAGACAAACT
326 GTTTTCAAAAGCTTTCGCGATTTTAGATCAACCTATAATAACAATGGTAGCTAACAAGACAAACT
14074522 TTTTGACTTGATGATTTGTTAAATAATAATAAAGAGGTTCTTGAACTTAGGAACTAATTCAATGT
391 TTTTGACTTGATGATTTGTTAAATAATAATAAAGAGGTTCTTGAACTTAGGAACTAATTCAATGT
14074587 GGCACGCCAGATTCAGCCATAACGTCTAGGTCGGGTTTAGGTAGTTACATTTAGTGGTATCAGAG
456 GGCACGCCAGATTCAGCCATAACGTCTAGGTCGGGTTTAGGTAGTTACATTTAGTGGTATCAGAG
*
14074652 CTAGGTTACAAAATTCGGCTGTGGAATGGGTTTTGAAAATATTTGGAATTTTTGGAAAACTGTTC
521 CTAGGTTACAAAACTCGGCTGTGGAATGGGTTTTGAAAATATTTGGAATTTTTGGAAAACTGTTC
14074717 TTGAAGTGTTTTGGAAGGTTTACAAGTGTGGCAC
586 TTGAAGTGTTTTGGAAGGTTTACAAGTGTGGCAC
14074751 ATTAAATTGT-TGTTTGCTTATTAGGGGATTACACACTGAATTTTTGTAAACTCACCCCTCTATT
1 ATTAAATTGTCTGTTTGCTTATTAGGGGATTACACACTGAATTTTTGTAAACTCACCCCTCTATT
14074815 TAACTGTACAGGTAATCCCTATTAGTAGGCGGGTCGGTGCTGCGAGGGACTCGAAGGTGGCCACA
66 TAACTGTACAGGTAATCCCTATTAGTAGGCGGGTCGGTGCTGCGAGGGACTCGAAGGTGGCCACA
14074880 CTACTACAGCTGTTCTACACTTGCTTTTACTTAAATTTAAATTTTGTGTTGGGTTTTGTTTATGT
131 CTACTACAGCTGTTCTACACTTGCTTTTACTTAAATTTAAATTTTGTGTTGGGTTTTGTTTATGT
14074945 AATAAGTCCATTTATGATTGTTTAAAATTTTAATTGGGTTTTTACTTACTTATTTTAAATTGCTA
196 AATAAGTCCATTTATGATTGTTTAAAATTTTAATTGGGTTTTTACTTACTTATTTTAAATTGCTA
*
14075010 ATGTAGGAGAAGATGAATTTACAAAACAATTACTGTTTTCAAAGACACGTAATTTAAACATTAGA
261 ATGTAGGAGAAGATGAATTTACAAAACAATTACTGTTTTCAAAGACACGCAATTTAAACATTAGA
14075075 GTTTTCAAAAGCTTTCGCGATTTTAGATCAACCTATAATAACAATGGTAGCTAACAAGACAAACT
326 GTTTTCAAAAGCTTTCGCGATTTTAGATCAACCTATAATAACAATGGTAGCTAACAAGACAAACT
14075140 TTTTGACTTGATGATTTGTTAAATAATAATAAAGAGGTTCTTGAACTTAGGAACTAATTCAATGT
391 TTTTGACTTGATGATTTGTTAAATAATAATAAAGAGGTTCTTGAACTTAGGAACTAATTCAATGT
14075205 GGCACGCCAGATTCAGCCATAACGTCTAGGTCGGGTTTAGGTAGTTACATTTAGTGGTATCAGAG
456 GGCACGCCAGATTCAGCCATAACGTCTAGGTCGGGTTTAGGTAGTTACATTTAGTGGTATCAGAG
14075270 CTAGGTTACAAAACTCGGCTGTGGAATGGGTTTTGAAAATATTTGGAATTTTTGGAAAACTGTTC
521 CTAGGTTACAAAACTCGGCTGTGGAATGGGTTTTGAAAATATTTGGAATTTTTGGAAAACTGTTC
14075335 TTGAAGTGTTTTGGAAGGTTTACAAGTGTGGCAC
586 TTGAAGTGTTTTGGAAGGTTTACAAGTGTGGCAC
14075369 A
1 A
14075370 CTGAGTCTCC
Statistics
Matches: 617, Mismatches: 2, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
618 607 0.98
619 10 0.02
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (619 bp):
ATTAAATTGTCTGTTTGCTTATTAGGGGATTACACACTGAATTTTTGTAAACTCACCCCTCTATT
TAACTGTACAGGTAATCCCTATTAGTAGGCGGGTCGGTGCTGCGAGGGACTCGAAGGTGGCCACA
CTACTACAGCTGTTCTACACTTGCTTTTACTTAAATTTAAATTTTGTGTTGGGTTTTGTTTATGT
AATAAGTCCATTTATGATTGTTTAAAATTTTAATTGGGTTTTTACTTACTTATTTTAAATTGCTA
ATGTAGGAGAAGATGAATTTACAAAACAATTACTGTTTTCAAAGACACGCAATTTAAACATTAGA
GTTTTCAAAAGCTTTCGCGATTTTAGATCAACCTATAATAACAATGGTAGCTAACAAGACAAACT
TTTTGACTTGATGATTTGTTAAATAATAATAAAGAGGTTCTTGAACTTAGGAACTAATTCAATGT
GGCACGCCAGATTCAGCCATAACGTCTAGGTCGGGTTTAGGTAGTTACATTTAGTGGTATCAGAG
CTAGGTTACAAAACTCGGCTGTGGAATGGGTTTTGAAAATATTTGGAATTTTTGGAAAACTGTTC
TTGAAGTGTTTTGGAAGGTTTACAAGTGTGGCAC
Found at i:14080957 original size:182 final size:182
Alignment explanation
Indices: 14080650--14081012 Score: 681
Period size: 182 Copynumber: 2.0 Consensus size: 182
14080640 CATGTATTTA
14080650 TGAAGTACATTAAAATGGTGAGATACATGAAAAGCATGTTATGTTATGATGGATGATAAATCCAA
1 TGAAGTACATTAAAATGGTGAGATACATGAAAAGCATGTTATGTTATGATGGATGATAAATCCAA
14080715 TTGAATCATGCTCAAGTATAATGGTTATCCATGTTAAATTCATATGAGTTATGTTTAAATGAACT
66 TTGAATCATGCTCAAGTATAATGGTTATCCATGTTAAATTCATATGAGTTATGTTTAAATGAACT
* ** *
14080780 AACATGTGTTGTTGATGTGATTAGGCTTGTGCCAAGCTTGTGGTTATGATTG
131 AACATATGTTAATCATGTGATTAGGCTTGTGCCAAGCTTGTGGTTATGATTG
14080832 TGAAGTACATTAAAATGGTGAGATACATGAAAAGCATGTTATGTTATGATGGATGATAAATCCAA
1 TGAAGTACATTAAAATGGTGAGATACATGAAAAGCATGTTATGTTATGATGGATGATAAATCCAA
14080897 TTGAATCATGCTCAAGTATAATGGTTATCCATGTTAAATTCATATGAGTTATGTTTAAATGAACT
66 TTGAATCATGCTCAAGTATAATGGTTATCCATGTTAAATTCATATGAGTTATGTTTAAATGAACT
*
14080962 AACATATGTTAATCATGTGCTTAGGCTTGTGCCAAGCTTGTGGTTATGATT
131 AACATATGTTAATCATGTGATTAGGCTTGTGCCAAGCTTGTGGTTATGATT
14081013 AATGTTTATG
Statistics
Matches: 176, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
182 176 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (182 bp):
TGAAGTACATTAAAATGGTGAGATACATGAAAAGCATGTTATGTTATGATGGATGATAAATCCAA
TTGAATCATGCTCAAGTATAATGGTTATCCATGTTAAATTCATATGAGTTATGTTTAAATGAACT
AACATATGTTAATCATGTGATTAGGCTTGTGCCAAGCTTGTGGTTATGATTG
Found at i:14090979 original size:34 final size:34
Alignment explanation
Indices: 14090936--14091000 Score: 130
Period size: 34 Copynumber: 1.9 Consensus size: 34
14090926 TATCCGGAGG
14090936 GACCATTCATTCTGAGAGAAGGGTACTGATTCCA
1 GACCATTCATTCTGAGAGAAGGGTACTGATTCCA
14090970 GACCATTCATTCTGAGAGAAGGGTACTGATT
1 GACCATTCATTCTGAGAGAAGGGTACTGATT
14091001 GAAGAAAGCA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (34 bp):
GACCATTCATTCTGAGAGAAGGGTACTGATTCCA
Found at i:14095227 original size:26 final size:25
Alignment explanation
Indices: 14095184--14095232 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
14095174 CAGAATTTGT
14095184 TTGTTCTTGTAATACTTTATTCTTCA
1 TTGTTCTTGTAATACTTT-TTCTTCA
*
14095210 TTGTTCTTG-AGTATCTTTTTCTT
1 TTGTTCTTGTAATA-CTTTTTCTT
14095233 TTCAAGACAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 8 0.38
26 13 0.62
ACGTcount: A:0.14, C:0.14, G:0.10, T:0.61
Consensus pattern (25 bp):
TTGTTCTTGTAATACTTTTTCTTCA
Found at i:14096314 original size:44 final size:44
Alignment explanation
Indices: 14096177--14096492 Score: 347
Period size: 44 Copynumber: 7.2 Consensus size: 44
14096167 AATGGATCGA
* *
14096177 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGT
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGC
* ** *
14096221 AGATCTTGTCTTCCCATACTGGTGGC--GAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTT--CAT-GTATTGGCATGAAGTAGATCGAAGATAGC
* * *
14096266 AGATCTTGTCTTCATG-ATTCGGCATGAAGTAGATCAAAGGTAGT
1 AGATCTTGTCTTCATGTATT-GGCATGAAGTAGATCGAAGATAGC
** *
14096310 AGATCTTGTCTTCCCGTACTGGTGGC--GAAGTAGATCGAAGAAAGC
1 AGATCTTGTCTTCATGTA-T--TGGCATGAAGTAGATCGAAGATAGC
* * *
14096355 AG-TCTTGTCTTCATGTATCGGCATGAAGTAGATCAAAGGTAGC
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGC
* * *
14096398 AGATCTTGTCTTCACGTATTGGCGTGAAGTAGATCGAAGATAAC
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGC
* *
14096442 AGATCTTGTCTTCATGTATTGGCACGAAGTAGATCAAAGATAGC
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGC
14096486 AGATCTT
1 AGATCTT
14096493 ATTTTCCCAC
Statistics
Matches: 224, Mismatches: 35, Indels: 26
0.79 0.12 0.09
Matches are distributed among these distances:
41 4 0.02
42 3 0.01
43 22 0.10
44 135 0.60
45 47 0.21
46 4 0.02
47 8 0.04
48 1 0.00
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (44 bp):
AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCGAAGATAGC
Found at i:14096330 original size:89 final size:89
Alignment explanation
Indices: 14096177--14096526 Score: 492
Period size: 88 Copynumber: 4.0 Consensus size: 89
14096167 AATGGATCGA
* * *
14096177 AGATCTTGTCTTCATGTATTGGCGTGAAGTAGATCGAAGATAGTAGATCTTGTCTTCCCATACTG
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
14096242 GTGGCGAAGTAGATCGAAGAAAGC
66 GTGGCGAAGTAGATCGAAGAAAGC
* * *
14096266 AGATCTTGTCTTCATG-ATTCGGCATGAAGTAGATCAAAGGTAGTAGATCTTGTCTTCCCGTACT
1 AGATCTTGTCTTCATGTATT-GGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACT
14096330 GGTGGCGAAGTAGATCGAAGAAAGC
65 GGTGGCGAAGTAGATCGAAGAAAGC
* * * * *
14096355 AG-TCTTGTCTTCATGTATCGGCATGAAGTAGATCAAAGGTAGCAGATCTTGTCTTCACGTATTG
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
* *
14096419 G-CGTGAAGTAGATCGAAGATAA-C
66 GTGGCGAAGTAGATCGAAGA-AAGC
* * * *
14096442 AGATCTTGTCTTCATGTATTGGCACGAAGTAGATCAAAGATAGCAGATCTTATTTTCCCACACTG
1 AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
*
14096507 GTGGTGAAGTAGATCGAAGA
66 GTGGCGAAGTAGATCGAAGA
14096527 TCGCATCAAG
Statistics
Matches: 236, Mismatches: 20, Indels: 10
0.89 0.08 0.04
Matches are distributed among these distances:
87 19 0.08
88 115 0.49
89 102 0.43
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (89 bp):
AGATCTTGTCTTCATGTATTGGCATGAAGTAGATCAAAGATAGCAGATCTTGTCTTCCCATACTG
GTGGCGAAGTAGATCGAAGAAAGC
Found at i:14097195 original size:21 final size:20
Alignment explanation
Indices: 14097156--14097195 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
14097146 GGTTGATATA
*
14097156 TATTTTTTGTTTCTGTTATT
1 TATTTTTTATTTCTGTTATT
*
14097176 TATTTTCTTATTTCTTTTAT
1 TATTTT-TTATTTCTGTTAT
14097196 ACTGATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.07, G:0.05, T:0.75
Consensus pattern (20 bp):
TATTTTTTATTTCTGTTATT
Found at i:14100870 original size:20 final size:19
Alignment explanation
Indices: 14100841--14100885 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
14100831 ATTAGAATGT
*
14100841 AAAAATTAAATTAAAAACA
1 AAAAATTAAAATAAAAACA
*
14100860 AAAATATTAAAATAAAAATA
1 AAAA-ATTAAAATAAAAACA
14100880 AAAAAT
1 AAAAAT
14100886 AGCTAAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (19 bp):
AAAAATTAAAATAAAAACA
Found at i:14109080 original size:43 final size:43
Alignment explanation
Indices: 14109002--14109124 Score: 126
Period size: 43 Copynumber: 2.9 Consensus size: 43
14108992 TTTCTGAAAA
* *
14109002 GTGTTTTTGTGTAAGACCACATCTGGGACGTTGGCATCGACTT
1 GTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCATCGACTT
*
14109045 GTGTTTTCGTGTAAGACC-CTGTCTAGGACAG-TGGCATCGA-TCT
1 GTGTTTTCGTGTAAGACCAC-ATCTAGGAC-GTTGGCATCGACT-T
* * * * *
14109088 ATGATTACATGTAAGACCACGTCTAGGACGTTGGCAT
1 GTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCAT
14109125 TGTACGAGCC
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 3 0.04
43 63 0.93
44 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.27, T:0.32
Consensus pattern (43 bp):
GTGTTTTCGTGTAAGACCACATCTAGGACGTTGGCATCGACTT
Found at i:14111477 original size:29 final size:29
Alignment explanation
Indices: 14111427--14111486 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 29
14111417 TATGAATACG
*
14111427 AAATTTCATTAGGATATCTTAGGTTAATT
1 AAATTTCATTAGGATATCTTAGATTAATT
* * *
14111456 AAATTTCGTTAGGTTATTTTAGATTAATT
1 AAATTTCATTAGGATATCTTAGATTAATT
14111485 AA
1 AA
14111487 TTAAATTAGT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.35, C:0.05, G:0.13, T:0.47
Consensus pattern (29 bp):
AAATTTCATTAGGATATCTTAGATTAATT
Found at i:14113075 original size:26 final size:26
Alignment explanation
Indices: 14112955--14113079 Score: 110
Period size: 27 Copynumber: 4.7 Consensus size: 26
14112945 GGTTATAACA
* *
14112955 GTCATTTTACCCTAT-GGGGGTATTTTG
1 GTCATTTTACCCT-TCGAGGG-ATTTCG
* * *
14112982 ATCATTTTATCTTTCGAGGGTATTTCG
1 GTCATTTTACCCTTCGAGGG-ATTTCG
* *
14113009 GTCATTTTACCCTTCAAGAGTG-TTTTG
1 GTCATTTTACCCTTC--GAGGGATTTCG
*
14113036 GTCATTTTACCCTTCGAGGGATTTCA
1 GTCATTTTACCCTTCGAGGGATTTCG
*
14113062 GTAATTTTACCCTTCGAG
1 GTCATTTTACCCTTCGAG
14113080 AGTATTTTGG
Statistics
Matches: 80, Mismatches: 14, Indels: 9
0.78 0.14 0.09
Matches are distributed among these distances:
25 4 0.05
26 21 0.26
27 51 0.64
29 4 0.05
ACGTcount: A:0.18, C:0.18, G:0.20, T:0.43
Consensus pattern (26 bp):
GTCATTTTACCCTTCGAGGGATTTCG
Found at i:14113082 original size:53 final size:54
Alignment explanation
Indices: 14112974--14113092 Score: 168
Period size: 53 Copynumber: 2.2 Consensus size: 54
14112964 CCCTATGGGG
* * * * *
14112974 GTATTTTGATCATTTTATCTTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGA
1 GTATTTTGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGA
* *
14113028 GTGTTTTGGTCATTTTACCCTTCGAGGG-ATTTCAGTAATTTTACCCTTCGAGA
1 GTATTTTGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGA
14113081 GTATTTTGGTCA
1 GTATTTTGGTCA
14113093 ATTAACAACC
Statistics
Matches: 57, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
53 33 0.58
54 24 0.42
ACGTcount: A:0.19, C:0.17, G:0.19, T:0.45
Consensus pattern (54 bp):
GTATTTTGGTCATTTTACCCTTCGAGGGTATTTCAGTAATTTTACCCTTCAAGA
Found at i:14118354 original size:65 final size:63
Alignment explanation
Indices: 14118241--14118365 Score: 171
Period size: 65 Copynumber: 2.0 Consensus size: 63
14118231 GAGAATCATT
* * *
14118241 AGAAAAGTTGGTGTTATTTCAGCATTTTATGTTGTTTTTAAGTCTGTTTCGTTTTCTTGCATAA
1 AGAAAAGTTGGTGTTATTTCAGCATTTTATGTTGATTTTAAGTATGTTT-ATTTTCTTGCATAA
**
14118305 AGAATAAGTTGGTGTTATTTTGGCATTTTTATGTT-ATTTTAAGTATGTTTATTTTCTTGCA
1 AGAA-AAGTTGGTGTTATTTCAGCA-TTTTATGTTGATTTTAAGTATGTTTATTTTCTTGCA
14118366 AGTTATACAT
Statistics
Matches: 54, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
64 14 0.26
65 31 0.57
66 9 0.17
ACGTcount: A:0.22, C:0.07, G:0.18, T:0.52
Consensus pattern (63 bp):
AGAAAAGTTGGTGTTATTTCAGCATTTTATGTTGATTTTAAGTATGTTTATTTTCTTGCATAA
Found at i:14124865 original size:123 final size:123
Alignment explanation
Indices: 14124715--14125086 Score: 636
Period size: 123 Copynumber: 3.0 Consensus size: 123
14124705 ATGAGGTGAA
14124715 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
*
14124780 AGTTGGATTCGAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
66 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
* *
14124838 AAGTGCAATTATGGAGGATTCTCTTGAATGTAAGAAATGCACACATAATGATGATGATGTTGTGA
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
14124903 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
66 AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
* **
14124961 AAGTGCAATTATGGAGGATTTTGTTGAATGTAAGAAATATACACATAGTGATGATGATGATGTTG
1 AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATA--G-TGATGATGATGTTG
* * *
14125026 TGAAGTTGGGTTCAAGTGACATTAAGGAAAAATTTTCTTCAAATAAGAGGAAGCGGGATTC
63 TGAAGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
14125087 TATGTGGGGA
Statistics
Matches: 235, Mismatches: 11, Indels: 3
0.94 0.04 0.01
Matches are distributed among these distances:
123 163 0.69
126 72 0.31
ACGTcount: A:0.36, C:0.08, G:0.26, T:0.29
Consensus pattern (123 bp):
AAGTGCAATTATGGAGGATTCTGTTGAATGTAAGAAATGCACACATAGTGATGATGATGTTGTGA
AGTTGGATTCAAGTGACATTAAGGAAAAATTGTCTTCAAATAAGAGGAAGAGGGATTC
Found at i:14135785 original size:27 final size:28
Alignment explanation
Indices: 14135727--14135811 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 28
14135717 TCATGTTCGT
* *
14135727 CAGTTTATTTGGTGAGCTAGGGGTTCGC
1 CAGTTTATTTGGCGAGCTAGGGGTTCAC
* *
14135755 CAGTCTATTTGGCGAGTTA-GGGTTCAC
1 CAGTTTATTTGGCGAGCTAGGGGTTCAC
* *
14135782 CAGTTTGTTTGGCGAACT-GGTGGTTCAC
1 CAGTTTATTTGGCGAGCTAGG-GGTTCAC
14135810 CA
1 CA
14135812 TGTAAGTTGT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
27 22 0.47
28 25 0.53
ACGTcount: A:0.16, C:0.18, G:0.32, T:0.34
Consensus pattern (28 bp):
CAGTTTATTTGGCGAGCTAGGGGTTCAC
Found at i:14138985 original size:18 final size:18
Alignment explanation
Indices: 14138962--14138998 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
14138952 TAGGTTTCCA
*
14138962 AAAATGAGAATAGAAATG
1 AAAATGAAAATAGAAATG
*
14138980 AAAATGAAAATGGAAATG
1 AAAATGAAAATAGAAATG
14138998 A
1 A
14138999 TCCATTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (18 bp):
AAAATGAAAATAGAAATG
Found at i:14155361 original size:20 final size:19
Alignment explanation
Indices: 14155317--14155361 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
14155307 AAGTCCCAAA
*
14155317 GCCATTCAATTTATACAAT
1 GCCATTCAATTAATACAAT
*
14155336 GCCATTCAACTTAATTCAAT
1 GCCATTCAA-TTAATACAAT
*
14155356 GTCATT
1 GCCATT
14155362 TAATCAGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
19 9 0.41
20 13 0.59
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (19 bp):
GCCATTCAATTAATACAAT
Found at i:14163098 original size:15 final size:15
Alignment explanation
Indices: 14163078--14163111 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
14163068 GGATCATATG
*
14163078 TACTAGCATGTTGCA
1 TACTAGCATGTTCCA
*
14163093 TACTAGCGTGTTCCA
1 TACTAGCATGTTCCA
14163108 TACT
1 TACT
14163112 TTGAAGAGTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.35
Consensus pattern (15 bp):
TACTAGCATGTTCCA
Found at i:14165531 original size:98 final size:99
Alignment explanation
Indices: 14165349--14165547 Score: 382
Period size: 98 Copynumber: 2.0 Consensus size: 99
14165339 GTGGATGAGG
14165349 TGTATGAAACATGTATTTTAATCTAAATACTAGAAATAGAAAGTATTTGATAAAGTACGGAGACT
1 TGTATGAAACA-GTATTTTAATCTAAATACTAGAAATAGAAAGTATTTGATAAAGTACGGAGACT
14165414 TAAAACACTAAATTGATAAGTAGGGGAGAATGTGA
65 TAAAACACTAAATTGATAAGTAGGGGAGAATGTGA
14165449 TGTATGAAACA-TATTTTAATCTAAATACTAGAAATAGAAAGTATTTGATAAAGTACGGAGACTT
1 TGTATGAAACAGTATTTTAATCTAAATACTAGAAATAGAAAGTATTTGATAAAGTACGGAGACTT
14165513 AAAACACTAAATTGATAAGTAGGGGAGAATGTGA
66 AAAACACTAAATTGATAAGTAGGGGAGAATGTGA
14165547 T
1 T
14165548 TTGTATTATG
Statistics
Matches: 99, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
98 88 0.89
100 11 0.11
ACGTcount: A:0.44, C:0.07, G:0.20, T:0.29
Consensus pattern (99 bp):
TGTATGAAACAGTATTTTAATCTAAATACTAGAAATAGAAAGTATTTGATAAAGTACGGAGACTT
AAAACACTAAATTGATAAGTAGGGGAGAATGTGA
Found at i:14169350 original size:27 final size:29
Alignment explanation
Indices: 14169312--14169365 Score: 94
Period size: 27 Copynumber: 1.9 Consensus size: 29
14169302 TATTTAAAAG
14169312 TTTATTGCATCCACCA-AAAA-AATATTA
1 TTTATTGCATCCACCACAAAAGAATATTA
14169339 TTTATTGCATCCACCACAAAAGAATAT
1 TTTATTGCATCCACCACAAAAGAATAT
14169366 ATTCCATCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
27 16 0.64
28 4 0.16
29 5 0.20
ACGTcount: A:0.43, C:0.20, G:0.06, T:0.31
Consensus pattern (29 bp):
TTTATTGCATCCACCACAAAAGAATATTA
Found at i:14183733 original size:20 final size:20
Alignment explanation
Indices: 14183708--14183745 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
14183698 GTAGAAATTA
14183708 TTATTCCTAGAAAATAAAAT
1 TTATTCCTAGAAAATAAAAT
*
14183728 TTATTCTTAGAAAATAAA
1 TTATTCCTAGAAAATAAA
14183746 TTCTCACTTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.08, G:0.05, T:0.37
Consensus pattern (20 bp):
TTATTCCTAGAAAATAAAAT
Found at i:14186114 original size:16 final size:16
Alignment explanation
Indices: 14186068--14186119 Score: 61
Period size: 16 Copynumber: 3.2 Consensus size: 16
14186058 TGGTACACTA
* *
14186068 TAATAGAATAGAGTTG
1 TAATGGAATAGAGCTG
14186084 TAATTGG-ATAGAGCTG
1 TAA-TGGAATAGAGCTG
*
14186100 TAATGGAATAAAGCTG
1 TAATGGAATAGAGCTG
14186116 TAAT
1 TAAT
14186120 TAGGAATTCA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 3 0.10
16 26 0.84
17 2 0.06
ACGTcount: A:0.40, C:0.04, G:0.25, T:0.31
Consensus pattern (16 bp):
TAATGGAATAGAGCTG
Found at i:14191981 original size:32 final size:32
Alignment explanation
Indices: 14191944--14192008 Score: 78
Period size: 32 Copynumber: 2.0 Consensus size: 32
14191934 CGACATTTAA
* *
14191944 TGTAACTAAGAGCCAACTCAC-ATTGTACACAT
1 TGTAACAAAGA-CCAACTCACAACTGTACACAT
* *
14191976 TGTAACAAAGACCAATTCGCAACTGTACACAT
1 TGTAACAAAGACCAACTCACAACTGTACACAT
14192008 T
1 T
14192009 TGCAACCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
31 7 0.25
32 21 0.75
ACGTcount: A:0.38, C:0.25, G:0.12, T:0.25
Consensus pattern (32 bp):
TGTAACAAAGACCAACTCACAACTGTACACAT
Found at i:14192417 original size:14 final size:14
Alignment explanation
Indices: 14192398--14192427 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
14192388 ATCACCCAAA
14192398 AAAGAAAAAAAAAG
1 AAAGAAAAAAAAAG
*
14192412 AAAGAAAAGAAAAG
1 AAAGAAAAAAAAAG
14192426 AA
1 AA
14192428 TGTGTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (14 bp):
AAAGAAAAAAAAAG
Found at i:14193107 original size:28 final size:27
Alignment explanation
Indices: 14193046--14193107 Score: 70
Period size: 28 Copynumber: 2.2 Consensus size: 27
14193036 ATAACATAAA
* *
14193046 TTAAAGATATCGAAAATAAAAATAGTT
1 TTAAATATATCAAAAATAAAAATAGTT
* *
14193073 TAAAAATATATCAAAAGATTAAAATAGTT
1 T-TAAATATATCAAAA-ATAAAAATAGTT
14193102 TTAAAT
1 TTAAAT
14193108 GAAACATATC
Statistics
Matches: 28, Mismatches: 5, Indels: 3
0.78 0.14 0.08
Matches are distributed among these distances:
27 1 0.04
28 15 0.54
29 12 0.43
ACGTcount: A:0.56, C:0.03, G:0.08, T:0.32
Consensus pattern (27 bp):
TTAAATATATCAAAAATAAAAATAGTT
Found at i:14195554 original size:20 final size:20
Alignment explanation
Indices: 14195529--14195566 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
14195519 AAAGCCTTGT
14195529 TAGGGTTTGTCAAAGGGAGA
1 TAGGGTTTGTCAAAGGGAGA
14195549 TAGGGTTTGTCAAAGGGA
1 TAGGGTTTGTCAAAGGGA
14195567 TATAAAACCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.39, T:0.26
Consensus pattern (20 bp):
TAGGGTTTGTCAAAGGGAGA
Found at i:14202838 original size:72 final size:72
Alignment explanation
Indices: 14202736--14202952 Score: 434
Period size: 72 Copynumber: 3.0 Consensus size: 72
14202726 TTTCCATTTT
14202736 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
1 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
14202801 TTTCTAA
66 TTTCTAA
14202808 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
1 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
14202873 TTTCTAA
66 TTTCTAA
14202880 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
1 CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
14202945 TTTCTAA
66 TTTCTAA
14202952 C
1 C
14202953 TCAACACTAA
Statistics
Matches: 145, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 145 1.00
ACGTcount: A:0.35, C:0.13, G:0.10, T:0.43
Consensus pattern (72 bp):
CCTATTCAAGTGTTCTAATAAAGGAAGATTTTCATTTTTTGCTATTTCAATAAATTGTATCAAAA
TTTCTAA
Found at i:14203171 original size:20 final size:20
Alignment explanation
Indices: 14203138--14203196 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
14203128 GATTTTTCAA
14203138 TATTTG-TTAAAAATTTTGG
1 TATTTGATTAAAAATTTTGG
* *
14203157 TATTTGATTACAAATTTTGA
1 TATTTGATTAAAAATTTTGG
*
14203177 TA-TTCATTAAAAATTTTGG
1 TATTTGATTAAAAATTTTGG
14203196 T
1 T
14203197 CTCATGTTAG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
19 21 0.62
20 13 0.38
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (20 bp):
TATTTGATTAAAAATTTTGG
Found at i:14203893 original size:18 final size:19
Alignment explanation
Indices: 14203863--14203920 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 19
14203853 TATAAAAACA
* *
14203863 TAAAAAAAT-ATTATAAAT
1 TAAAAGAATCATTAAAAAT
14203881 TAAAAG-ATCATTAAAAAT
1 TAAAAGAATCATTAAAAAT
* * *
14203899 TATAAGAATTATTAGAAAT
1 TAAAAGAATCATTAAAAAT
14203918 TAA
1 TAA
14203921 TTAAAAACCA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 2 0.06
18 18 0.56
19 12 0.38
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (19 bp):
TAAAAGAATCATTAAAAAT
Found at i:14204287 original size:15 final size:16
Alignment explanation
Indices: 14204264--14204296 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14204254 TATATTTTTT
14204264 ATAAAA-TTTTATAAA
1 ATAAAATTTTTATAAA
*
14204279 ATAATATTTTTATAAA
1 ATAAAATTTTTATAAA
14204295 AT
1 AT
14204297 TTTATGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
ATAAAATTTTTATAAA
Found at i:14204295 original size:26 final size:28
Alignment explanation
Indices: 14204248--14204301 Score: 94
Period size: 26 Copynumber: 2.0 Consensus size: 28
14204238 GAAAATGAAA
14204248 AAAATATATATTTTTTATAAAATTTTAT
1 AAAATATATATTTTTTATAAAATTTTAT
14204276 AAAATA-ATA-TTTTTATAAAATTTTAT
1 AAAATATATATTTTTTATAAAATTTTAT
14204302 GGTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 17 0.65
27 3 0.12
28 6 0.23
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (28 bp):
AAAATATATATTTTTTATAAAATTTTAT
Found at i:14206932 original size:27 final size:27
Alignment explanation
Indices: 14206894--14206947 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
14206884 AAACGACTTG
14206894 CTATATTTTGAAAGATGTGCCAACTAA
1 CTATATTTTGAAAGATGTGCCAACTAA
*
14206921 CTATATTTTGAAGGATGTGCCAACTAA
1 CTATATTTTGAAAGATGTGCCAACTAA
14206948 GGCAGCATCG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.33
Consensus pattern (27 bp):
CTATATTTTGAAAGATGTGCCAACTAA
Found at i:14209385 original size:7 final size:7
Alignment explanation
Indices: 14209375--14209407 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
14209365 GTAAAATTTA
14209375 AATATTC
1 AATATTC
14209382 AATATTC
1 AATATTC
14209389 AATATTC
1 AATATTC
14209396 AATATTC
1 AATATTC
14209403 AATAT
1 AATAT
14209408 GATATTGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (7 bp):
AATATTC
Found at i:14212610 original size:16 final size:16
Alignment explanation
Indices: 14212589--14212620 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14212579 ATTTTGTTGC
*
14212589 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
14212605 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
14212621 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:14212904 original size:51 final size:51
Alignment explanation
Indices: 14212846--14213033 Score: 231
Period size: 51 Copynumber: 3.7 Consensus size: 51
14212836 GTTCACATAT
* *
14212846 TAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACGTAG
* * * *
14212897 TAGCCTGCACATAGTACTACAAACGTGATCGA--AGCTATCCGGTACGCATAG
1 TAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGGTACACGTAG
* * *
14212948 TAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 TAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGGTACACGTAG
*
14212998 TAGCTTGCACATAGTACTACACACGTGACCATCACT
1 TAGCCTGCACATAGTACTACACACGTGACCATCACT
14213034 TTCACTTTCA
Statistics
Matches: 115, Mismatches: 16, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
49 4 0.03
50 41 0.36
51 67 0.58
52 2 0.02
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.24
Consensus pattern (51 bp):
TAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGGTACACGTAG
Found at i:14213024 original size:101 final size:102
Alignment explanation
Indices: 14212841--14213025 Score: 293
Period size: 101 Copynumber: 1.8 Consensus size: 102
14212831 TACCGGTTCA
* *
14212841 CATATTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
14212906 CATAGTACTACAAACGTGATCGAAGCTATCCGGTACG
66 CATAGTACTACAAACGTGATCGAAGCTATCCGGTACG
* * *
14212943 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCTTGC
1 CATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
*
14213006 ACATAGTACTACACACGTGA
65 ACATAGTACTACAAACGTGA
14213026 CCATCACTTT
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
101 38 0.50
102 34 0.45
103 4 0.05
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
CATAGTACTACAAACGTGATCGAAGCTATCCGGTACG
Found at i:14213049 original size:101 final size:102
Alignment explanation
Indices: 14212833--14213025 Score: 282
Period size: 102 Copynumber: 1.9 Consensus size: 102
14212823 ATTAACGATA
* *
14212833 CCGGTTCACATATTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
*
14212898 AGCCTGCACATAGTACTACAAACGTGATCGAAGCTAT
66 AGCCTGCACATAGTACTACAAACGTGATCCAAGCTAT
* * * *
14212935 CCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAG
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAG
* *
14212998 TAGCTTGCACATAGTACTACACACGTGA
65 TAGCCTGCACATAGTACTACAAACGTGA
14213026 CCATCACTTT
Statistics
Matches: 82, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
101 38 0.46
102 40 0.49
103 4 0.05
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.24
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGT
AGCCTGCACATAGTACTACAAACGTGATCCAAGCTAT
Found at i:14221295 original size:27 final size:27
Alignment explanation
Indices: 14221223--14221450 Score: 119
Period size: 27 Copynumber: 8.4 Consensus size: 27
14221213 ACCTTAAAAT
* * *
14221223 AGGTAAAATGACCAAAAAAACCCCCATA
1 AGGTAAAATGACC-ATAATACCCCTATA
* * * * *
14221251 GGGTAAAATGACTATAATGCCCTTGTA
1 AGGTAAAATGACCATAATACCCCTATA
*
14221278 AGGTAAAATGACCGTAATACCCCTATA
1 AGGTAAAATGACCATAATACCCCTATA
* * * *
14221305 GGGTAAAATGA-TAGAAAAACTCCC-A-A
1 AGGTAAAATGACCA-TAATAC-CCCTATA
* * *
14221331 AGGGTAAAATAACCGTAATGCCCCTATA
1 A-GGTAAAATGACCATAATACCCCTATA
* **
14221359 GGGTAAAATGACTGTAATA-CCCTCAT-
1 AGGTAAAATGACCATAATACCCCT-ATA
* *
14221385 AGGTTTAAATGACTGA-AATACCCCTATA
1 AGG-TAAAATGAC-CATAATACCCCTATA
* * * *
14221413 AGCTAAAATGACCGTAATGCCCCTAGA
1 AGGTAAAATGACCATAATACCCCTATA
14221440 AGGT-AAATGAC
1 AGGTAAAATGAC
14221451 TATTTCGCCC
Statistics
Matches: 147, Mismatches: 41, Indels: 26
0.69 0.19 0.12
Matches are distributed among these distances:
26 17 0.12
27 109 0.74
28 21 0.14
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.21
Consensus pattern (27 bp):
AGGTAAAATGACCATAATACCCCTATA
Found at i:14221309 original size:54 final size:53
Alignment explanation
Indices: 14221223--14221424 Score: 158
Period size: 54 Copynumber: 3.7 Consensus size: 53
14221213 ACCTTAAAAT
* * * *
14221223 AGGTAAAATGACCAAAAAAACCCCCATAGGGTAAAATGACTATAATGCCCTTGTA
1 AGGTAAAATGACC-GAAATACCCCTATAGGGTAAAATGACTATAATACCC-TGTA
* * * **
14221278 AGGTAAAATGACCGTAATACCCCTATAGGGTAAAATGA-TAGAAAAACTCC-CAA
1 AGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACTA-TAATAC-CCTGTA
* * * * *
14221331 AGGGTAAAATAACCGTAATGCCCCTATAGGGTAAAATGACTGTAATACCCT-CA
1 A-GGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACTATAATACCCTGTA
* * * *
14221384 TAGGTTTAAATGACTGAAATACCCCTATAAGCTAAAATGAC
1 -AGG-TAAAATGACCGAAATACCCCTATAGGGTAAAATGAC
14221425 CGTAATGCCC
Statistics
Matches: 118, Mismatches: 22, Indels: 15
0.76 0.14 0.10
Matches are distributed among these distances:
53 9 0.08
54 93 0.79
55 16 0.14
ACGTcount: A:0.42, C:0.19, G:0.17, T:0.22
Consensus pattern (53 bp):
AGGTAAAATGACCGAAATACCCCTATAGGGTAAAATGACTATAATACCCTGTA
Found at i:14221350 original size:81 final size:82
Alignment explanation
Indices: 14221224--14221450 Score: 212
Period size: 81 Copynumber: 2.8 Consensus size: 82
14221214 CCTTAAAATA
* * * * *
14221224 GGTAAAATGACCAAAAAAACCCCCATAGGGTAAAATGACTATAATGCCCTTGTAAGGTAAAATGA
1 GGTAAAATGACCAAAAAAACCCCCAAAGGGTAAAATAACCATAATGCCCCTATAAGGTAAAATGA
14221289 CCGTAATACCCCTATAG
66 CCGTAATACCCCTATAG
* * * * *
14221306 GGTAAAATGA-TAGAAAAACTCCCAAAGGGTAAAATAACCGTAATGCCCCTATAGGGTAAAATGA
1 GGTAAAATGACCAAAAAAACCCCCAAAGGGTAAAATAACCATAATGCCCCTATAAGGTAAAATGA
*
14221370 CTGTAATA-CCCTCATAG
66 CCGTAATACCCCT-ATAG
* * ** * * * * * *
14221387 GTTTAAATGA-CTGAAATACCCCTATAA-GCTAAAATGACCGTAATGCCCCTAGAAGGT-AAATG
1 GGTAAAATGACCAAAAAAACCCCCA-AAGGGTAAAATAACCATAATGCCCCTATAAGGTAAAATG
14221449 AC
65 AC
14221451 TATTTCGCCC
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
80 11 0.09
81 98 0.81
82 12 0.10
ACGTcount: A:0.41, C:0.20, G:0.18, T:0.22
Consensus pattern (82 bp):
GGTAAAATGACCAAAAAAACCCCCAAAGGGTAAAATAACCATAATGCCCCTATAAGGTAAAATGA
CCGTAATACCCCTATAG
Found at i:14221504 original size:24 final size:24
Alignment explanation
Indices: 14221467--14221539 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
14221457 GCCCTTCGAG
14221467 TGTAAATGATTGATTTGTCTGTGA
1 TGTAAATGATTGATTTGTCTGTGA
* *
14221491 TGTAAAAGACTGATTTGTCTGTGA
1 TGTAAATGATTGATTTGTCTGTGA
*
14221515 TTTAAATGATTGATTTGTCTGTGA
1 TGTAAATGATTGATTTGTCTGTGA
14221539 T
1 T
14221540 TGGTATGACT
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 44 1.00
ACGTcount: A:0.26, C:0.05, G:0.23, T:0.45
Consensus pattern (24 bp):
TGTAAATGATTGATTTGTCTGTGA
Found at i:14221547 original size:24 final size:23
Alignment explanation
Indices: 14221472--14221547 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
14221462 TCGAGTGTAA
14221472 ATGATTGATTTGTCTGTGA-TGT
1 ATGATTGATTTGTCTGTGATTGT
* *
14221494 AAAAGACTGATTTGTCTGTGATT-T
1 --ATGATTGATTTGTCTGTGATTGT
14221518 AAATGATTGATTTGTCTGTGATTGGT
1 --ATGATTGATTTGTCTGTGATT-GT
14221544 ATGA
1 ATGA
14221548 CTAATTCTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
24 43 0.96
25 1 0.02
26 1 0.02
ACGTcount: A:0.25, C:0.05, G:0.25, T:0.45
Consensus pattern (23 bp):
ATGATTGATTTGTCTGTGATTGT
Found at i:14221842 original size:107 final size:108
Alignment explanation
Indices: 14221651--14221874 Score: 342
Period size: 107 Copynumber: 2.1 Consensus size: 108
14221641 ATCACTGTTT
* * * *
14221651 CTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGTTGTGATACTGTTGCTGGCAGTTTTG
1 CTGGTGGCTTGGCCACATATACTATTACGGGCACCTTTGTTATGATACTGTTACTGGCAGCTTTG
* *
14221716 CTGCGATGCTACTGATGGCTTT-TGCCGATCATAATACCGTTA
66 CTACGATGCTACTGATGGCTTTGTGCCGATCATAATACCATTA
** *
14221758 CTGGTGGCTTGGCCACATATACTATTACGGGCAGTTTTGTTATGATACTTTTACTGGCAGCTTTG
1 CTGGTGGCTTGGCCACATATACTATTACGGGCACCTTTGTTATGATACTGTTACTGGCAGCTTTG
*
14221823 CTACGATGCTATTGATGGCTTTGTGCCGATCATAATACCATTA
66 CTACGATGCTACTGATGGCTTTGTGCCGATCATAATACCATTA
*
14221866 CTGATGGCT
1 CTGGTGGCT
14221875 GTGTGCCGAT
Statistics
Matches: 105, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 78 0.74
108 27 0.26
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.36
Consensus pattern (108 bp):
CTGGTGGCTTGGCCACATATACTATTACGGGCACCTTTGTTATGATACTGTTACTGGCAGCTTTG
CTACGATGCTACTGATGGCTTTGTGCCGATCATAATACCATTA
Found at i:14221921 original size:32 final size:31
Alignment explanation
Indices: 14221829--14221938 Score: 123
Period size: 32 Copynumber: 3.5 Consensus size: 31
14221819 TTTGCTACGA
*
14221829 TGCTATTGATGGCTTTGTGCCGATCATAATAC
1 TGCTACTGATGGCTTTGTGCCGATCAT-ATAC
*** *
14221861 CATTACTGATGGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATAT-AC
*
14221893 TGCTACTGATGGCTTTGTGCCAATCATATTAC
1 TGCTACTGATGGCTTTGTGCCGATCATA-TAC
*
14221925 TG-TACTTATGGCTT
1 TGCTACTGATGGCTT
14221939 GTAGCCATTC
Statistics
Matches: 65, Mismatches: 11, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
31 13 0.20
32 51 0.78
33 1 0.02
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (31 bp):
TGCTACTGATGGCTTTGTGCCGATCATATAC
Found at i:14222162 original size:8 final size:8
Alignment explanation
Indices: 14222132--14222161 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
14222122 TTGGGATGGC
14222132 TTGCATGA
1 TTGCATGA
14222140 TTGCATGA
1 TTGCATGA
*
14222148 TTGCATTA
1 TTGCATGA
14222156 TTGCAT
1 TTGCAT
14222162 TTCTATTACT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.23, C:0.13, G:0.20, T:0.43
Consensus pattern (8 bp):
TTGCATGA
Found at i:14222245 original size:46 final size:46
Alignment explanation
Indices: 14222162--14222249 Score: 115
Period size: 46 Copynumber: 1.9 Consensus size: 46
14222152 ATTATTGCAT
* * *
14222162 TTCTATTACTGATTCTGTCATTGTATTGAGCTTAGGCCCACATGTA
1 TTCTATTACTGATTCTGTCACTGTAATGAGCTAAGGCCCACATGTA
* *
14222208 TTCTATTTCTGATTCTGAT-ACTGTAATGGGCTAAGGCCCACA
1 TTCTATTACTGATTCTG-TCACTGTAATGAGCTAAGGCCCACA
14222250 CTACACTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
46 35 0.97
47 1 0.03
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (46 bp):
TTCTATTACTGATTCTGTCACTGTAATGAGCTAAGGCCCACATGTA
Found at i:14225198 original size:54 final size:54
Alignment explanation
Indices: 14225084--14225283 Score: 211
Period size: 54 Copynumber: 3.7 Consensus size: 54
14225074 ACCCCAAAAT
* * * * * **
14225084 AGGTATAATGACTGAAAAACCCCTATAGGGTAAAATGACCGCAATGCCCCTGTA
1 AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGATCGCAATACCCCCATA
* * * * * *
14225138 ATGTAAAATGTCCGTAATACCCCTGTAGGGTAAAATGATCGAAAAACCCCCATA
1 AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGATCGCAATACCCCCATA
* * *
14225192 AGGTAAAATGACTGTAATACCTCTATAGGGTAAAATAATCGCAATACCCTCATA
1 AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGATCGCAATACCCCCATA
* * * * *
14225246 GGGTTAAATGACTGAAATACCCCTGTAAGGTAAAATGA
1 AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGA
14225284 CCGTAATGCC
Statistics
Matches: 117, Mismatches: 29, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
54 117 1.00
ACGTcount: A:0.39, C:0.20, G:0.18, T:0.23
Consensus pattern (54 bp):
AGGTAAAATGACTGTAATACCCCTATAGGGTAAAATGATCGCAATACCCCCATA
Found at i:14225225 original size:81 final size:81
Alignment explanation
Indices: 14225085--14225297 Score: 225
Period size: 81 Copynumber: 2.6 Consensus size: 81
14225075 CCCCAAAATA
* * * * * * *
14225085 GGTATAATGACTGAAAAACCCCTATAGGGTAAAATGACCGCAATGCCCCTGTAATGTAAAAT-GT
1 GGTAAAATGACTGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCCTATAAGGTAAAATAAT
* *
14225149 CCGTAATACCC-CTGTAG
66 -CGCAATACCCTC-ATAG
* * * *
14225166 GGTAAAATGA-TCGAAAAACCCCCATAAGGTAAAATGACTGTAATACCTCTATAGGGTAAAATAA
1 GGTAAAATGACT-GAAAAACCCCTATAAGGTAAAATGACCGTAATACCCCTATAAGGTAAAATAA
14225230 TCGCAATACCCTCATAG
65 TCGCAATACCCTCATAG
* * * *
14225247 GGTTAAATGACTGAAATACCCCTGTAAGGTAAAATGACCGTAATGCCCCTA
1 GGTAAAATGACTGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCCTA
14225298 GAGTGTCAAT
Statistics
Matches: 108, Mismatches: 20, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
80 1 0.01
81 104 0.96
82 3 0.03
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (81 bp):
GGTAAAATGACTGAAAAACCCCTATAAGGTAAAATGACCGTAATACCCCTATAAGGTAAAATAAT
CGCAATACCCTCATAG
Found at i:14225295 original size:27 final size:27
Alignment explanation
Indices: 14225102--14225297 Score: 169
Period size: 27 Copynumber: 7.3 Consensus size: 27
14225092 TGACTGAAAA
*
14225102 ACCCCTATAGGGTAAAATGACCGCAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * ** *
14225129 GCCCCTGTAATGTAAAATGTCCGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * * *
14225156 ACCCCTGTAGGGTAAAATGATCGAAAA
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * *
14225183 ACCCCCATAAGGTAAAATGACTGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * * *
14225210 ACCTCTATAGGGTAAAATAATCGCAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
* * *
14225237 A-CCCTCATAGGGTTAAATGACTGAAAT
1 ACCCCT-ATAGGGTAAAATGACCGTAAT
* *
14225264 ACCCCTGTAAGGTAAAATGACCGTAAT
1 ACCCCTATAGGGTAAAATGACCGTAAT
*
14225291 GCCCCTA
1 ACCCCTA
14225298 GAGTGTCAAT
Statistics
Matches: 127, Mismatches: 40, Indels: 4
0.74 0.23 0.02
Matches are distributed among these distances:
26 3 0.02
27 120 0.94
28 4 0.03
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (27 bp):
ACCCCTATAGGGTAAAATGACCGTAAT
Found at i:14225374 original size:24 final size:24
Alignment explanation
Indices: 14225327--14225375 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
14225317 GCTTATCGAG
* *
14225327 TGTAAATGATTGATTTGTCCGTGA
1 TGTAAAAGATTGATTTGTACGTGA
*
14225351 TGTAAAAGATTGATTTGTATGTGA
1 TGTAAAAGATTGATTTGTACGTGA
14225375 T
1 T
14225376 TGGTATAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.24, T:0.43
Consensus pattern (24 bp):
TGTAAAAGATTGATTTGTACGTGA
Found at i:14225388 original size:24 final size:24
Alignment explanation
Indices: 14225361--14225437 Score: 109
Period size: 24 Copynumber: 3.2 Consensus size: 24
14225351 TGTAAAAGAT
*
14225361 TGATTTGTATGTGATTGGTATAAC
1 TGATTTGTATGTGATTGGTATGAC
* * *
14225385 TGATTTGTCTATAATTGGTATGAC
1 TGATTTGTATGTGATTGGTATGAC
*
14225409 TGATTTGTATGTGATTTGTATGAC
1 TGATTTGTATGTGATTGGTATGAC
14225433 TGATT
1 TGATT
14225438 CTGAGCAAGG
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 45 1.00
ACGTcount: A:0.23, C:0.05, G:0.23, T:0.48
Consensus pattern (24 bp):
TGATTTGTATGTGATTGGTATGAC
Found at i:14225425 original size:11 final size:11
Alignment explanation
Indices: 14225361--14225430 Score: 50
Period size: 11 Copynumber: 6.0 Consensus size: 11
14225351 TGTAAAAGAT
14225361 TGATTTGTATG
1 TGATTTGTATG
* *
14225372 TGATTGGTATAAC
1 TGATTTGTAT--G
* *
14225385 TGATTTGTCTA
1 TGATTTGTATG
* *
14225396 TAATTGGTATG
1 TGATTTGTATG
14225407 ACTGATTTGTATG
1 --TGATTTGTATG
14225420 TGATTTGTATG
1 TGATTTGTATG
14225431 ACTGATTCTG
Statistics
Matches: 44, Mismatches: 11, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
11 27 0.61
13 17 0.39
ACGTcount: A:0.23, C:0.04, G:0.24, T:0.49
Consensus pattern (11 bp):
TGATTTGTATG
Found at i:14225538 original size:27 final size:27
Alignment explanation
Indices: 14225506--14225562 Score: 73
Period size: 27 Copynumber: 2.1 Consensus size: 27
14225496 GGAAGTACTG
*
14225506 TACTGGTGGCTCT-GCCACA-ATTACTAT
1 TACTGGAGGCT-TGGCCACATA-TACTAT
14225533 TACTGGAGGCTTGGCCACATATACTAT
1 TACTGGAGGCTTGGCCACATATACTAT
14225560 TAC
1 TAC
14225563 GGGCACCTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
26 1 0.04
27 25 0.93
28 1 0.04
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.32
Consensus pattern (27 bp):
TACTGGAGGCTTGGCCACATATACTAT
Found at i:14225779 original size:140 final size:139
Alignment explanation
Indices: 14225532--14225806 Score: 374
Period size: 140 Copynumber: 2.0 Consensus size: 139
14225522 ACAATTACTA
14225532 TTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTGCGTTGATACTGTTGCTAGCAGCT
1 TTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTT-CGTTGATACTGTTGCTAGCAGCT
* * * * * *
14225597 TTGCTGCGATGCTACTGATGGCGTTGTGCTAGTCATATTACCGTTACTAATAGCTT-TGTGCCGA
65 TTACTACAATGCTACTGATGGCGTTGTGCCAGTCATAATACCGTTACTAAT-GCTTGTGTGCCAA
14225661 TCATATTACCG
129 TCATATTACCG
* * *
14225672 TTACTGGTGGCTTGGCCACATATACTATTACGGGCAGCTTT-GTTGCGATACTGTTGCTGGCAGC
1 TTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTCGTT--GATACTGTTGCTAGCAGC
* * * * *
14225736 TTTACTACAATGCTTCTGATGGCTTTGTGCCGGTCATAATACCGTTACTGATGGTTGTGTGCCAA
64 TTTACTACAATGCTACTGATGGCGTTGTGCCAGTCATAATACCGTTACTAATGCTTGTGTGCCAA
14225801 TCATAT
129 TCATAT
14225807 CACTGCTATT
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
138 3 0.03
139 3 0.03
140 112 0.95
ACGTcount: A:0.20, C:0.21, G:0.24, T:0.35
Consensus pattern (139 bp):
TTACTGGAGGCTTGGCCACATATACTATTACGGGCACCTTTCGTTGATACTGTTGCTAGCAGCTT
TACTACAATGCTACTGATGGCGTTGTGCCAGTCATAATACCGTTACTAATGCTTGTGTGCCAATC
ATATTACCG
Found at i:14225805 original size:32 final size:33
Alignment explanation
Indices: 14225751--14225837 Score: 99
Period size: 32 Copynumber: 2.7 Consensus size: 33
14225741 TACAATGCTT
** *
14225751 CTGATGGCTTTGTGCCGGTCATAAT-ACCGTTA
1 CTGATGGCTTTGTGCCAATCATAATCACCGCTA
*
14225783 CTGATGG-TTGTGTGCCAATCAT-ATCACTGCTA
1 CTGATGGCTT-TGTGCCAATCATAATCACCGCTA
*
14225815 TTGATGGCTTTGTGCCAATCATA
1 CTGATGGCTTTGTGCCAATCATA
14225838 TTACTGTACT
Statistics
Matches: 46, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
31 4 0.09
32 40 0.87
33 2 0.04
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.36
Consensus pattern (33 bp):
CTGATGGCTTTGTGCCAATCATAATCACCGCTA
Found at i:14225838 original size:32 final size:30
Alignment explanation
Indices: 14225752--14225855 Score: 95
Period size: 32 Copynumber: 3.3 Consensus size: 30
14225742 ACAATGCTTC
** * *
14225752 TGATGGCTTTGTGCCGGTCATAATACCGTTAC
1 TGATGGCTTTGTGCCAATCAT-ATACTG-TAT
14225784 TGATGG-TTGTGTGCCAATCATATCACTGCTAT
1 TGATGGCTT-TGTGCCAATCATAT-ACTG-TAT
14225816 TGATGGCTTTGTGCCAATCATATTACTGTACT
1 TGATGGCTTTGTGCCAATCATA-TACTGTA-T
14225848 T-ATGGCTT
1 TGATGGCTT
14225856 GTAACCATTC
Statistics
Matches: 62, Mismatches: 5, Indels: 11
0.79 0.06 0.14
Matches are distributed among these distances:
31 13 0.21
32 46 0.74
33 3 0.05
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (30 bp):
TGATGGCTTTGTGCCAATCATATACTGTAT
Found at i:14231804 original size:18 final size:17
Alignment explanation
Indices: 14231778--14231813 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
14231768 TTTGGTTATA
14231778 TTTAATTTTCGATATGTT
1 TTTAATTTT-GATATGTT
*
14231796 TTTATTTTTGATATGTT
1 TTTAATTTTGATATGTT
14231813 T
1 T
14231814 CATTTAAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.67
Consensus pattern (17 bp):
TTTAATTTTGATATGTT
Found at i:14232301 original size:9 final size:9
Alignment explanation
Indices: 14232284--14232317 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
14232274 TAAAAACACA
14232284 TTTTTTTTC
1 TTTTTTTTC
*
14232293 TTTTCTTTC
1 TTTTTTTTC
14232302 TTTTTTTTTC
1 -TTTTTTTTC
14232312 TTTTTT
1 TTTTTT
14232318 GGGTAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:14232311 original size:10 final size:10
Alignment explanation
Indices: 14232284--14232317 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
14232274 TAAAAACACA
14232284 TTTTTTTTC-
1 TTTTTTTTCT
*
14232293 TTTTCTTTCT
1 TTTTTTTTCT
14232303 TTTTTTTTCT
1 TTTTTTTTCT
14232313 TTTTT
1 TTTTT
14232318 GGGTAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:14236923 original size:32 final size:32
Alignment explanation
Indices: 14236887--14236948 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
14236877 ATATATTATG
14236887 ATTTT-TT-AATTCATATAATAATTTTATTAAGA
1 ATTTTATTAAATT-ATAT-ATAATTTTATTAAGA
*
14236919 ATTTTATTAAATTATATATTATTTTATTAA
1 ATTTTATTAAATTATATATAATTTTATTAA
14236949 ATTATATTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
32 17 0.63
33 6 0.22
34 4 0.15
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (32 bp):
ATTTTATTAAATTATATATAATTTTATTAAGA
Found at i:14237082 original size:44 final size:46
Alignment explanation
Indices: 14237033--14237126 Score: 122
Period size: 44 Copynumber: 2.1 Consensus size: 46
14237023 TAATAAACAT
*
14237033 CATTCCATTCAACCAAACAGA-AGAA-TA-TTATTACAGTTCTATTC
1 CATTCCATTCAACCAAACA-ATAGAATTACTGATTACAGTTCTATTC
* * *
14237077 CATTCCATTGAACCAAACAATTGAATTACTGATTACAGTTTTATTC
1 CATTCCATTCAACCAAACAATAGAATTACTGATTACAGTTCTATTC
14237123 CATT
1 CATT
14237127 ACAACTCTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
43 1 0.02
44 21 0.49
45 2 0.05
46 19 0.44
ACGTcount: A:0.36, C:0.21, G:0.07, T:0.35
Consensus pattern (46 bp):
CATTCCATTCAACCAAACAATAGAATTACTGATTACAGTTCTATTC
Found at i:14237233 original size:19 final size:19
Alignment explanation
Indices: 14237204--14237244 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
14237194 AAGTCCTTTT
14237204 AAAATATAAAAATTAT-TA
1 AAAATATAAAAATTATATA
14237222 AAAATCATAAAAATTATATA
1 AAAAT-ATAAAAATTATATA
14237242 AAA
1 AAA
14237245 GTTTACAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 5 0.24
19 11 0.52
20 5 0.24
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATATAAAAATTATATA
Found at i:14237675 original size:6 final size:6
Alignment explanation
Indices: 14237664--14237695 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
14237654 AAAGAGCGAA
14237664 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AA
14237696 TCTTTCTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
AAAAAT
Found at i:14248343 original size:25 final size:25
Alignment explanation
Indices: 14248311--14248362 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
14248301 TTTTTCTACC
14248311 TTTTTGTTTGCTTTGCCATGTCCGT
1 TTTTTGTTTGCTTTGCCATGTCCGT
14248336 TTTTTGTTTGCTTTGCCATGTCCGT
1 TTTTTGTTTGCTTTGCCATGTCCGT
14248361 TT
1 TT
14248363 ATGTTGTGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.04, C:0.19, G:0.19, T:0.58
Consensus pattern (25 bp):
TTTTTGTTTGCTTTGCCATGTCCGT
Found at i:14250669 original size:16 final size:16
Alignment explanation
Indices: 14250645--14250682 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
14250635 TTTGGTTCGC
* *
14250645 TGTATTGGATTAGAGG
1 TGTAATGGAATAGAGG
14250661 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
14250677 TGTAAT
1 TGTAAT
14250683 AGCAAATCAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:14250727 original size:45 final size:44
Alignment explanation
Indices: 14250661--14250751 Score: 128
Period size: 45 Copynumber: 2.0 Consensus size: 44
14250651 GGATTAGAGG
*
14250661 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAG-AAATCAACTGTTTGGTTGAA
* ***
14250706 TGTAATGGAATAGAGGCGTAATAGTAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
14250750 TG
1 TG
14250752 GAATAGAGGT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
44 18 0.44
45 23 0.56
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (44 bp):
TGTAATGGAATAGAGGCGTAATAGAAATCAACTGTTTGGTTGAA
Found at i:14250766 original size:39 final size:43
Alignment explanation
Indices: 14250661--14250767 Score: 123
Period size: 45 Copynumber: 2.5 Consensus size: 43
14250651 GGATTAGAGG
14250661 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT--A
* * ***
14250706 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGG-T-
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
14250746 TG-AATGGAATAGAGGTGTAATA
1 TGTAATGGAATAGAGGTGTAATA
14250768 ACATAATGGA
Statistics
Matches: 56, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
39 19 0.34
40 2 0.04
43 1 0.02
44 11 0.20
45 23 0.41
ACGTcount: A:0.34, C:0.05, G:0.29, T:0.33
Consensus pattern (43 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTTA
Found at i:14256800 original size:16 final size:17
Alignment explanation
Indices: 14256764--14256800 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
14256754 GTTATATTTA
*
14256764 ATTTTTGATATGTTTTT
1 ATTTTTGATATGTTTTC
14256781 ATTTTTGATATG-TTTC
1 ATTTTTGATATGTTTTC
14256797 ATTT
1 ATTT
14256801 AAAACTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.37
17 12 0.63
ACGTcount: A:0.19, C:0.03, G:0.11, T:0.68
Consensus pattern (17 bp):
ATTTTTGATATGTTTTC
Found at i:14257175 original size:113 final size:114
Alignment explanation
Indices: 14256955--14257400 Score: 420
Period size: 113 Copynumber: 3.9 Consensus size: 114
14256945 CGTTTTTAAA
* * * ****
14256955 AAAACGCCGTAAAAGAACATCATTAGTGGCGT-TTATTTGTAAGCGCCGCAAAATACCTTAA-CT
1 AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTA-CAAAAAGCGCCGCAAAATACCTTAATC-
* * *
14257018 AAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
64 AAAACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTTACGAT
* *
14257069 AAAACGACGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGC-AAATATCTTAATCAA
1 AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGCAAAATACCTTAATCAA
* ** *** *
14257133 AACGCACCGTTTGGTCTTGAGGTAGATTAGTGTTAGTGGCGTTTTTAAA
66 AACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTTACGAT
* * * * **** *
14257182 AAAACGCCGTAAAAGAACATCATTAGTGCCGT-TTATTTTTAAGCGCCGCAAAATACCTTAACCA
1 AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTA-CAAAAAGCGCCGCAAAATACCTTAATCA
* * * * *
14257246 AAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
65 AAACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTTACGAT
* * * * ** *
14257296 AAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGTGCCAC-AAATATCGGTACT-A
1 AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGCAAAATA-CCTTAATCA
* *
14257359 AAACGCACCGTTTGGTGTTGAGG-AGGATTAGTATTAGTGGCG
65 AAACGCACCGTTTGGTTTTGAGGTA-GATTAGAATTAGTGGCG
14257401 CTTATTAAAA
Statistics
Matches: 260, Mismatches: 65, Indels: 15
0.76 0.19 0.04
Matches are distributed among these distances:
112 4 0.02
113 126 0.48
114 124 0.48
115 6 0.02
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (114 bp):
AAAACGCCGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGCAAAATACCTTAATCAA
AACGCACCGTTTGGTTTTGAGGTAGATTAGAATTAGTGGCGTTTACGAT
Found at i:14257300 original size:114 final size:114
Alignment explanation
Indices: 14256955--14257327 Score: 439
Period size: 114 Copynumber: 3.3 Consensus size: 114
14256945 CGTTTTTAAA
* *
14256955 AAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGCAAAATACCTTAACTAA
1 AAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCAA
* *
14257020 AACGCAGCGTTTGGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
66 AACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* * * * ** * * *
14257069 AAAACGACGCAAAAGAACATTATTAGCGGCGTATTA-CAAAAAGCGCCGC-AAATATCTTAATCA
1 AAAACGCCGTAAAAGAACATCATTAGTGGCGT-TTATTTATAAGCGCCGCAAAATACCTTAACCA
* * * ** *** *
14257132 AAACGCACCGTTTGGTCTTGAGGTAGATTAGTGTTAGTGGCGTTTTTAAA
65 AAACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
* *
14257182 AAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTTTAAGCGCCGCAAAATACCTTAACCAA
1 AAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCAA
* * *
14257247 AACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
66 AACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
*
14257296 AAAACGCCGCT-AAAGAACAGT-ATTAGCGGCGT
1 AAAACGCCG-TAAAAGAACA-TCATTAGTGGCGT
14257328 ATTACAAAAA
Statistics
Matches: 208, Mismatches: 46, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
112 3 0.01
113 87 0.42
114 113 0.54
115 5 0.02
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (114 bp):
AAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTATAAGCGCCGCAAAATACCTTAACCAA
AACGCAACGTTTGGTTTTGAGGTATATTAGAATTAGTGGCGTTTACGAT
Found at i:14257334 original size:227 final size:227
Alignment explanation
Indices: 14256939--14257414 Score: 749
Period size: 227 Copynumber: 2.1 Consensus size: 227
14256929 CCCGAACAAC
*
14256939 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGGCGTTTATTTGTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTGTAAGCGCCGC
* * * * * *
14257004 AAAATACCTTAACTAAAACGCAGCGTTTGGTTTTGAGGTATATTAGAATTCGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
* * *
14257069 AAAACGACGCAAAAGAACATTATTAGCGGCGTATTACAAAAAGCGCCGCAAATATC-TTAATCAA
131 AAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTAAT-AA
*
14257133 AACGCACCGTTTGGTCTTGAGGTA-GATTAGTGT
195 AACGCACCGTTTGGTCTTGAGG-AGGATTAGTAT
*
14257166 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTTTAAGCGCCGC
1 TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTGTAAGCGCCGC
14257231 AAAATACCTTAACCAAAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
66 AAAATACCTTAACCAAAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
* * * *
14257296 AAAACGCCGCTAAAGAACAGTATTAGCGGCGTATTACAAAAAGTGCCACAAATATCGGTACTAAA
131 AAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTAATAAA
*
14257361 ACGCACCGTTTGGTGTTGAGGAGGATTAGTAT
196 ACGCACCGTTTGGTCTTGAGGAGGATTAGTAT
*
14257393 TAGTGGCGCTTATTAAAAAAAC
1 TAGTGGCG-TTTTTAAAAAAAC
14257415 ACCGCCAAAT
Statistics
Matches: 228, Mismatches: 18, Indels: 5
0.91 0.07 0.02
Matches are distributed among these distances:
226 1 0.00
227 212 0.93
228 15 0.07
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.28
Consensus pattern (227 bp):
TAGTGGCGTTTTTAAAAAAACGCCGTAAAAGAACATCATTAGTGCCGTTTATTTGTAAGCGCCGC
AAAATACCTTAACCAAAACGCAACATTTGATTTTGAGGTATATTAAAATTAGTGGCGTTTACGAT
AAAACGACGCAAAAGAACAGTATTAGCGGCGTATTACAAAAAGCGCCACAAATATCGGTAATAAA
ACGCACCGTTTGGTCTTGAGGAGGATTAGTAT
Found at i:14263752 original size:21 final size:21
Alignment explanation
Indices: 14263728--14263777 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
14263718 NNNNNNNGGA
* *
14263728 AAGCAGCGGCTGCAGCGAGGG
1 AAGCAGAGGCTGCAGCGAGAG
* *
14263749 AAGCGGAGGCTGCAGTGAGAG
1 AAGCAGAGGCTGCAGCGAGAG
14263770 AAGCAGAG
1 AAGCAGAG
14263778 CAGAGCAAAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.18, G:0.46, T:0.06
Consensus pattern (21 bp):
AAGCAGAGGCTGCAGCGAGAG
Found at i:14264229 original size:42 final size:42
Alignment explanation
Indices: 14264183--14264386 Score: 302
Period size: 42 Copynumber: 4.8 Consensus size: 42
14264173 TAAGAATAAA
* *
14264183 CGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* *
14264225 CGCCGCTAAAGAACATGGTCTTTAGAGGCTTTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGC-GTTTTTTTCTAAG
**
14264268 CGCCGCTAAAGAACATTTTCTTTAGCGGCGTTTTTTTCTAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
* * *
14264310 CGCCGCTAAACAACATGGTCTTTAACGGTGTTTTTTT-TAAAG
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCT-AAG
14264352 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
14264387 GTTTGTAAAC
Statistics
Matches: 144, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
41 1 0.01
42 105 0.73
43 38 0.26
ACGTcount: A:0.23, C:0.21, G:0.22, T:0.35
Consensus pattern (42 bp):
CGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTTCTAAG
Found at i:14264294 original size:85 final size:84
Alignment explanation
Indices: 14264179--14264386 Score: 314
Period size: 85 Copynumber: 2.5 Consensus size: 84
14264169 CGCTTAAGAA
* *
14264179 TAAA-CGCCGCTGAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAAGAACATGG
1 TAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAACAACATGG
14264243 TCTTTAGA-GGCT-TTTTTTT
66 TCTTTA-ACGG-TGTTTTTTT
* **
14264262 TCTAAGCGCCGCTAAAGAACATTTTCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAACAACATG
1 T-AAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAACAACATG
14264327 GTCTTTAACGGTGTTTTTTT
65 GTCTTTAACGGTGTTTTTTT
*
14264347 TAAAGCGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT
1 TAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTT
14264387 GTTTGTAAAC
Statistics
Matches: 113, Mismatches: 8, Indels: 7
0.88 0.06 0.05
Matches are distributed among these distances:
83 1 0.01
84 40 0.35
85 72 0.64
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (84 bp):
TAAAGCGCCGCTAAAGAACATGATCTTTAGCGGCGTTTTTTTCTAAGCGCCGCTAAACAACATGG
TCTTTAACGGTGTTTTTTT
Found at i:14267214 original size:9 final size:9
Alignment explanation
Indices: 14267197--14267230 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
14267187 TAAAAACACA
14267197 TTTTTTTTC
1 TTTTTTTTC
*
14267206 TTTTCTTTC
1 TTTTTTTTC
14267215 TTTTTTTTTC
1 -TTTTTTTTC
14267225 TTTTTT
1 TTTTTT
14267231 GGGTAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 14 0.64
10 8 0.36
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:14267224 original size:10 final size:10
Alignment explanation
Indices: 14267197--14267230 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
14267187 TAAAAACACA
14267197 TTTTTTTTC-
1 TTTTTTTTCT
*
14267206 TTTTCTTTCT
1 TTTTTTTTCT
14267216 TTTTTTTTCT
1 TTTTTTTTCT
14267226 TTTTT
1 TTTTT
14267231 GGGTAATTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:14272806 original size:46 final size:44
Alignment explanation
Indices: 14272720--14272813 Score: 129
Period size: 46 Copynumber: 2.1 Consensus size: 44
14272710 ATTACAACAT
14272720 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTTTATTC
1 CATTCCATTCAACCAAACATAAGAATACTATTACAGTTTTATTC
*
14272764 CATTTCATTCAACC-AA-ATAATTGAATTACTGATTACAGTTTTATTC
1 CATTCCATTCAACCAAACATAA--GAA-TACT-ATTACAGTTTTATTC
14272810 CATT
1 CATT
14272814 ACAACTCTAT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
42 4 0.09
43 2 0.04
44 16 0.36
45 4 0.09
46 19 0.42
ACGTcount: A:0.36, C:0.20, G:0.05, T:0.38
Consensus pattern (44 bp):
CATTCCATTCAACCAAACATAAGAATACTATTACAGTTTTATTC
Found at i:14272824 original size:16 final size:16
Alignment explanation
Indices: 14272805--14272846 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
14272795 ATTACAGTTT
*
14272805 TATTCCATTACAACTC
1 TATTCAATTACAACTC
14272821 TATTCAATTACAACTC
1 TATTCAATTACAACTC
*
14272837 TATTCTATTA
1 TATTCAATTA
14272847 TAGTAAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.33, C:0.24, G:0.00, T:0.43
Consensus pattern (16 bp):
TATTCAATTACAACTC
Found at i:14283462 original size:2 final size:2
Alignment explanation
Indices: 14283455--14283482 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14283445 AGAATCAACA
14283455 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
14283483 TTGTGGTGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:14286206 original size:26 final size:26
Alignment explanation
Indices: 14286170--14286245 Score: 80
Period size: 26 Copynumber: 2.9 Consensus size: 26
14286160 TCTCATCCCT
* *
14286170 ATTTTATCCCTAGCAAAATTTTGACG
1 ATTTTACCCCTAGTAAAATTTTGACG
* * *
14286196 ATTTTACCCCTATTAAAAATTTGATG
1 ATTTTACCCCTAGTAAAATTTTGACG
** *
14286222 ATTTTGGCCCTGGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
14286246 GAAAATAAGT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
26 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGACG
Found at i:14305111 original size:84 final size:84
Alignment explanation
Indices: 14304984--14305151 Score: 318
Period size: 84 Copynumber: 2.0 Consensus size: 84
14304974 AAATTAAAAA
*
14304984 ATAAAAAATATATATTTTTATTAAATTCAGGCTGGGCCGGGCCGGGGCCGAGCCAAAAAAGTGGT
1 ATAAAAAATATATATTTTTATTAAATTCAGGCTGGGCCGGGCCGGGCCCGAGCCAAAAAAGTGGT
*
14305049 GCCCGAGGCCCGGGCTATT
66 GCCCGAGGCCCGGCCTATT
14305068 ATAAAAAATATATATTTTTATTAAATTCAGGCTGGGCCGGGCCGGGCCCGAGCCAAAAAAGTGGT
1 ATAAAAAATATATATTTTTATTAAATTCAGGCTGGGCCGGGCCGGGCCCGAGCCAAAAAAGTGGT
14305133 GCCCGAGGCCCGGCCTATT
66 GCCCGAGGCCCGGCCTATT
14305152 TTCTAAACGG
Statistics
Matches: 82, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
84 82 1.00
ACGTcount: A:0.29, C:0.21, G:0.27, T:0.23
Consensus pattern (84 bp):
ATAAAAAATATATATTTTTATTAAATTCAGGCTGGGCCGGGCCGGGCCCGAGCCAAAAAAGTGGT
GCCCGAGGCCCGGCCTATT
Found at i:14313611 original size:19 final size:19
Alignment explanation
Indices: 14313576--14313618 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14313566 AAGGAAATAT
*
14313576 TTTTATTTATTTGAAGAGG
1 TTTTATTTATTTCAAGAGG
*
14313595 TTTTATTT-TTTACAAGAGT
1 TTTTATTTATTT-CAAGAGG
14313614 TTTTA
1 TTTTA
14313619 CTCATCCTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 3 0.14
19 18 0.86
ACGTcount: A:0.26, C:0.02, G:0.14, T:0.58
Consensus pattern (19 bp):
TTTTATTTATTTCAAGAGG
Found at i:14322565 original size:41 final size:41
Alignment explanation
Indices: 14322470--14322657 Score: 114
Period size: 41 Copynumber: 4.5 Consensus size: 41
14322460 GAATGTAAGG
* * * * *
14322470 GGTTGCTAAGTGCAGATTCC-TCGAATCATTGATCA-AAAAGG
1 GGTTGCTAAGTGCTGATTCCAT-GTATCATTGATTATAAGA-T
*
14322511 GGTTGCTATGTGCTGATTCCATGTATCATTGATTATAAGAT
1 GGTTGCTAAGTGCTGATTCCATGTATCATTGATTATAAGAT
* * * * * * *
14322552 GGTTTCTAAGTGCTAATTTCACCGTATCCTTGATTGTGAA-AG
1 GGTTGCTAAGTGCTGATTCCA-TGTATCATTGATTAT-AAGAT
* * * *
14322594 GGTTTGCTATGTACTGATTCCCCT-TATCATTGATTATAAGGT
1 GG-TTGCTAAGTGCTGATT-CCATGTATCATTGATTATAAGAT
* * *
14322636 GGTTGGTAACTGTTGATTCCAT
1 GGTTGCTAAGTGCTGATTCCAT
14322658 CGGGATTCTT
Statistics
Matches: 109, Mismatches: 31, Indels: 15
0.70 0.20 0.10
Matches are distributed among these distances:
40 3 0.03
41 59 0.54
42 32 0.29
43 14 0.13
44 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.22, T:0.38
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCATGTATCATTGATTATAAGAT
Found at i:14322627 original size:42 final size:41
Alignment explanation
Indices: 14322466--14322632 Score: 122
Period size: 41 Copynumber: 4.0 Consensus size: 41
14322456 CTTTGAATGT
* * * * ** * *
14322466 AAGGGGTTGCTAAGTGCAGATTCCTCGAATCATTGATCAAA
1 AAGGGTTTGCTATGTGCTGATTCCCCTTATCATTGATTATA
* *
14322507 AAGGGGTTGCTATGTGCTGATT-CCATGTATCATTGATTATA
1 AAGGGTTTGCTATGTGCTGATTCCCCT-TATCATTGATTATA
* * * * * * *
14322548 AGATGGTTT-CTAAGTGCTAATTTCACCGTATCCTTGATTGTGA
1 A-AGGGTTTGCTATGTGCTGA-TTCCCCTTATCATTGATTAT-A
*
14322591 AAGGGTTTGCTATGTACTGATTCCCCTTATCATTGATTATA
1 AAGGGTTTGCTATGTGCTGATTCCCCTTATCATTGATTATA
14322632 A
1 A
14322633 GGTGGTTGGT
Statistics
Matches: 95, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
40 1 0.01
41 43 0.45
42 40 0.42
43 11 0.12
ACGTcount: A:0.26, C:0.16, G:0.22, T:0.37
Consensus pattern (41 bp):
AAGGGTTTGCTATGTGCTGATTCCCCTTATCATTGATTATA
Found at i:14328290 original size:107 final size:108
Alignment explanation
Indices: 14328179--14328402 Score: 378
Period size: 107 Copynumber: 2.1 Consensus size: 108
14328169 TAAATTCATA
* * **
14328179 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGTATTGGAATTTGACACTATGAATTCCA
1 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGAATTGGAATTTGACACCACAAATTCCA
*
14328244 AATG-TAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
66 AATGCAAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
14328286 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGAATTGGAATTTGACACCACAAATTCCA
1 TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGAATTGGAATTTGACACCACAAATTCCA
*
14328351 AATGCAAAAAAAAAAAAATCAAAATTTAAATTTGAGAATGATT
66 AATGCAAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
*
14328394 TCCTTTTGA
1 TTCTTTTGA
14328403 AAAAAAAAAT
Statistics
Matches: 109, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
107 65 0.60
108 44 0.40
ACGTcount: A:0.42, C:0.11, G:0.14, T:0.33
Consensus pattern (108 bp):
TTCTTTTGATGAGCTACAAGATGCTTTCAATGAGTTAGAATTGGAATTTGACACCACAAATTCCA
AATGCAAAAAAAAAAAAATCAAAATTTAAAATTGAGAATGATT
Found at i:14332326 original size:27 final size:27
Alignment explanation
Indices: 14332259--14332327 Score: 72
Period size: 28 Copynumber: 2.5 Consensus size: 27
14332249 TATTTCTAAG
14332259 ACTG-TATTTGAATGGGCTAAGGCCCAA
1 ACTGATATTTG-ATGGGCTAAGGCCCAA
*
14332286 ACTGAT-TCTGTGATGGGCTAAGGCCC-T
1 ACTGATAT-T-TGATGGGCTAAGGCCCAA
14332313 ACTGCATATTTGATG
1 ACTG-ATATTTGATG
14332328 CTGATACTGT
Statistics
Matches: 36, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
27 14 0.39
28 19 0.53
29 3 0.08
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (27 bp):
ACTGATATTTGATGGGCTAAGGCCCAA
Found at i:14332480 original size:41 final size:41
Alignment explanation
Indices: 14332286--14332472 Score: 286
Period size: 41 Copynumber: 4.6 Consensus size: 41
14332276 TAAGGCCCAA
*
14332286 ACTGATTCTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
* *
14332327 GCTGATACTGTGATGGGTTAAGGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
* * *
14332368 ACTGATCCTGTGATAGGCTAAAGCCCTACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
* *
14332409 ACTGATACTGTGATGGGCTAAGGACCAACTGCATATTTGAT
1 ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
*
14332450 ACTG-TACTGAGATGGGCTAAGGC
1 ACTGATACTGTGATGGGCTAAGGC
14332473 TCAAACTGTT
Statistics
Matches: 131, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 17 0.13
41 114 0.87
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (41 bp):
ACTGATACTGTGATGGGCTAAGGCCCTACTGCATATTTGAT
Found at i:14337715 original size:51 final size:51
Alignment explanation
Indices: 14337656--14337752 Score: 185
Period size: 51 Copynumber: 1.9 Consensus size: 51
14337646 TACTTTCAAG
14337656 ATTTTATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAT
1 ATTTTATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAT
*
14337707 ATTTTATTTTGAAATTTCCTTATTAATTAGGTCATTTGATTACTTG
1 ATTTTATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTG
14337753 GACAAGTTTG
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 45 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.52
Consensus pattern (51 bp):
ATTTTATTTTGAAATTTCCTTATTAATTAGGCCATTTGATTACTTGAACAT
Found at i:14354436 original size:24 final size:24
Alignment explanation
Indices: 14354408--14354453 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14354398 ATCATTTTTT
* *
14354408 GCTGCTCATTCATTTGCTTTTGAA
1 GCTGCTCATGCATTTCCTTTTGAA
*
14354432 GCTGCTCCTGCATTTCCTTTTG
1 GCTGCTCATGCATTTCCTTTTG
14354454 GGACTGTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.26, G:0.17, T:0.46
Consensus pattern (24 bp):
GCTGCTCATGCATTTCCTTTTGAA
Found at i:14357042 original size:11 final size:11
Alignment explanation
Indices: 14357026--14357057 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
14357016 TTGATCTTCA
14357026 CCCATTATAGG
1 CCCATTATAGG
14357037 CCCATTATA--
1 CCCATTATAGG
14357046 CCCATTATAGG
1 CCCATTATAGG
14357057 C
1 C
14357058 TCATATAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
9 9 0.47
11 10 0.53
ACGTcount: A:0.28, C:0.31, G:0.12, T:0.28
Consensus pattern (11 bp):
CCCATTATAGG
Found at i:14359513 original size:44 final size:44
Alignment explanation
Indices: 14359450--14359538 Score: 169
Period size: 44 Copynumber: 2.0 Consensus size: 44
14359440 TCCAAATATT
*
14359450 TGATTTTGTTTCCTTTCTTGCGTTTGCTCCTTGCAGGTGAAGAC
1 TGATTTTGTTTCCTTTCTTGCGTTTCCTCCTTGCAGGTGAAGAC
14359494 TGATTTTGTTTCCTTTCTTGCGTTTCCTCCTTGCAGGTGAAGAC
1 TGATTTTGTTTCCTTTCTTGCGTTTCCTCCTTGCAGGTGAAGAC
14359538 T
1 T
14359539 CGTCTCTTGG
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 44 1.00
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.46
Consensus pattern (44 bp):
TGATTTTGTTTCCTTTCTTGCGTTTCCTCCTTGCAGGTGAAGAC
Found at i:14365796 original size:22 final size:22
Alignment explanation
Indices: 14365748--14365798 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
14365738 AAAAATTGAA
*
14365748 TAATTTAAATAATAGTAAAAGTG
1 TAATTTAAATAATAG-AAAAGTC
*
14365771 TAATTTAACATGATAG-AAAGTC
1 TAATTTAA-ATAATAGAAAAGTC
14365793 TAATTT
1 TAATTT
14365799 TAGCTTTGTC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 11 0.44
23 8 0.32
24 6 0.24
ACGTcount: A:0.47, C:0.04, G:0.12, T:0.37
Consensus pattern (22 bp):
TAATTTAAATAATAGAAAAGTC
Found at i:14392354 original size:21 final size:22
Alignment explanation
Indices: 14392330--14392371 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
14392320 GTTCTCCCCA
*
14392330 GCCACGTGCA-CCTCCGTACGT
1 GCCACGTCCACCCTCCGTACGT
*
14392351 GCCACGTCCACCCTCTGTACG
1 GCCACGTCCACCCTCCGTACG
14392372 CCGTACCTGC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.14, C:0.45, G:0.21, T:0.19
Consensus pattern (22 bp):
GCCACGTCCACCCTCCGTACGT
Found at i:14397914 original size:5 final size:5
Alignment explanation
Indices: 14397904--14397951 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
14397894 TTGAAGTTTT
* *
14397904 ATCGA ATCGA ATCGA GT-GA GATAGA GATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA -ATCGA -ATCGA ATCGA ATCGA ATCGA AT
14397952 TATTTGTTCG
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
4 2 0.05
5 29 0.76
6 7 0.18
ACGTcount: A:0.40, C:0.15, G:0.25, T:0.21
Consensus pattern (5 bp):
ATCGA
Found at i:14402279 original size:25 final size:25
Alignment explanation
Indices: 14402227--14402293 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
14402217 ATAAAATACA
*
14402227 TCTTTACATTCATTTTTGAGTCAATAT
1 TCTTT-CATTC-TTTTTGAATCAATAT
14402254 TCTTTCATTCTTTTTGAAT-AATTAT
1 TCTTTCATTCTTTTTGAATCAA-TAT
**
14402279 TAGTTCATTCTTTTT
1 TCTTTCATTCTTTTT
14402294 TATTTTCTTC
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.06
25 24 0.67
26 5 0.14
27 5 0.14
ACGTcount: A:0.22, C:0.13, G:0.06, T:0.58
Consensus pattern (25 bp):
TCTTTCATTCTTTTTGAATCAATAT
Found at i:14403605 original size:12 final size:12
Alignment explanation
Indices: 14403588--14403635 Score: 69
Period size: 12 Copynumber: 3.9 Consensus size: 12
14403578 AAAAAAAGAA
*
14403588 AAAAATAAAAAT
1 AAAAATAAAAAC
14403600 AAAAATAAAAAC
1 AAAAATAAAAAC
14403612 AAAAATCAAAAAC
1 AAAAAT-AAAAAC
*
14403625 AAAAACAAAAA
1 AAAAATAAAAA
14403636 AGAAGAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
12 22 0.67
13 11 0.33
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:14403609 original size:19 final size:18
Alignment explanation
Indices: 14403588--14403635 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
14403578 AAAAAAAGAA
* *
14403588 AAAAATAAAAATAAAAAT
1 AAAAACAAAAATAAAAAC
14403606 AAAAACAAAAATCAAAAAC
1 AAAAACAAAAAT-AAAAAC
14403625 AAAAACAAAAA
1 AAAAACAAAAA
14403636 AGAAGAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
18 11 0.41
19 16 0.59
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (18 bp):
AAAAACAAAAATAAAAAC
Found at i:14403653 original size:12 final size:12
Alignment explanation
Indices: 14403588--14403662 Score: 55
Period size: 12 Copynumber: 6.2 Consensus size: 12
14403578 AAAAAAAGAA
* *
14403588 AAAAATAAAAAT
1 AAAAAGAAAAAC
*
14403600 AAAAATAAAAAC
1 AAAAAGAAAAAC
*
14403612 AAAAATCAAAAAC
1 AAAAA-GAAAAAC
*
14403625 AAAAA-CAAAA-
1 AAAAAGAAAAAC
* *
14403635 AAGAAGAAAAAG
1 AAAAAGAAAAAC
14403647 AAAAAGAAAAATC
1 AAAAAGAAAAA-C
14403660 AAA
1 AAA
14403663 GTCAAAGTCA
Statistics
Matches: 52, Mismatches: 7, Indels: 7
0.79 0.11 0.11
Matches are distributed among these distances:
10 4 0.08
11 8 0.15
12 26 0.50
13 14 0.27
ACGTcount: A:0.81, C:0.07, G:0.05, T:0.07
Consensus pattern (12 bp):
AAAAAGAAAAAC
Found at i:14403657 original size:6 final size:6
Alignment explanation
Indices: 14403588--14403635 Score: 60
Period size: 6 Copynumber: 7.8 Consensus size: 6
14403578 AAAAAAAGAA
* * *
14403588 AAAAAT AAAAAT AAAAAT AAAAAC AAAAATC AAAAAC AAAAAC AAAAA
1 AAAAAC AAAAAC AAAAAC AAAAAC AAAAA-C AAAAAC AAAAAC AAAAA
14403636 AGAAGAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
6 34 0.85
7 6 0.15
ACGTcount: A:0.83, C:0.08, G:0.00, T:0.08
Consensus pattern (6 bp):
AAAAAC
Found at i:14404624 original size:8 final size:7
Alignment explanation
Indices: 14404611--14404654 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
14404601 CAGAAAAATG
14404611 TGAAAAA
1 TGAAAAA
14404618 TGAAAAAA
1 TG-AAAAA
14404626 TG-AAAA
1 TGAAAAA
14404632 TGAAAAA
1 TGAAAAA
14404639 TGAAAAA
1 TGAAAAA
14404646 -GTAAAAA
1 TG-AAAAA
14404653 TG
1 TG
14404655 GAGAGGCCAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
6 7 0.21
7 18 0.55
8 8 0.24
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (7 bp):
TGAAAAA
Found at i:14404637 original size:21 final size:21
Alignment explanation
Indices: 14404611--14404654 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
14404601 CAGAAAAATG
*
14404611 TGAAAAATGAAAAAATGAAAA
1 TGAAAAATGAAAAAATAAAAA
*
14404632 TGAAAAATGAAAAAGTAAAAA
1 TGAAAAATGAAAAAATAAAAA
14404653 TG
1 TG
14404655 GAGAGGCCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.16, T:0.16
Consensus pattern (21 bp):
TGAAAAATGAAAAAATAAAAA
Found at i:14406042 original size:87 final size:87
Alignment explanation
Indices: 14405889--14406111 Score: 304
Period size: 87 Copynumber: 2.6 Consensus size: 87
14405879 TAGATCAGTG
* * * * *
14405889 AAGATAGCAGATCTTGTCTTCCTGCATCGACAGTGAAGCAGATCGAAAACAAAGCCTTGCCTCCC
1 AAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACAAAACCTCGCCTCCC
* *
14405954 TCGGTTGCAGTGGAGCAGGTTA
66 TCAGTTGCAGTGGAGCAGGGTA
* * **
14405976 AATATAACAGATCTTGCCTTTCTGCAT-GACAGCAAAGCAGATCGAAGACAACAACCTCGCCTCC
1 AAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACAA-AACCTCGCCTCC
14406040 CTCAGTTGCAGTGGAGCAGGGTA
65 CTCAGTTGCAGTGGAGCAGGGTA
* * *
14406063 AAGATGATAGATCTTGCCTTCCTGCATCGACAGTGAAGCAAATCGAAGA
1 AAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGA
14406112 TGGTGGATTT
Statistics
Matches: 116, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
86 21 0.18
87 77 0.66
88 18 0.16
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.22
Consensus pattern (87 bp):
AAGATAACAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACAAAACCTCGCCTCCC
TCAGTTGCAGTGGAGCAGGGTA
Found at i:14406398 original size:128 final size:128
Alignment explanation
Indices: 14406170--14406687 Score: 750
Period size: 128 Copynumber: 4.0 Consensus size: 128
14406160 TAATTCTACT
* * * * *
14406170 TCCCTGGGCAGCAGTAGAATAGATTGAAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGTA
1 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
* * *
14406235 GATCGAATACGGCGAATCTTATCTTCAAGATTAAGGAAGCAGATTTAAGTCACAAGTCCTATC
66 GATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
* * * *
14406298 TCCCTGGTCAGTAGTGGAATAGGTTAGAAATTACAGATCTTGTCTCCCTAAGCAGTAGCGAAGCA
1 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
* *
14406363 GATCGAAGACGGCAAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGGCCTATC
66 GATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
* * * * * *
14406426 TCCCTGGTCAGCATTGCAATAGGTTGGAAATTATAAATCTTGTCTCCCTAAGCAGTAACGGAGCA
1 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
* *
14406491 GATCGAATACGGCGAATCTTATCTTCAAGAGTAAGAAAGCAGATTTAAGCCACAAGTCCTATC
66 GATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
* * *
14406554 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATCATAGATCTTATCTTCCTAAGCAGTAGCGGAGCA
1 TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
* * * * *
14406619 GATCAGAAG-CGGCGAATCTTATCTTCAAGAGTAGGGAAGCAAATTGAAGCCACAAATCCTTTC
66 GATC-GAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
14406682 TCCCTG
1 TCCCTG
14406688 ATGTTGCGGT
Statistics
Matches: 349, Mismatches: 40, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
128 346 0.99
129 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (128 bp):
TCCCTGGTCAGCAGTGGAATAGGTTGGAAATTACAGATCTTATCTCCCTAAGCAGTAGCGGAGCA
GATCGAAGACGGCGAATCTTATCTTCAAGAGTAAGGAAGCAGATTTAAGCCACAAGTCCTATC
Found at i:14408347 original size:461 final size:458
Alignment explanation
Indices: 14407466--14408369 Score: 1553
Period size: 459 Copynumber: 2.0 Consensus size: 458
14407456 ACCATATTTT
* * *
14407466 TAGGAAAACATTTTATATAATATAGTATTAATTTATACATATACGTATATATTACTATTGGTTTT
1 TAGGAAAACATTTTATATAATATAGTACTAATTCATACATATACGTATATATTACTATTGGTTTC
*
14407531 GAATCATTTTTTTTACCTATTATATACATGTATACACTTCATTTCTTTTAATATTCTATTTTTAT
66 GAATCATTTTTTTCACCTATTATATACATGTATACACTTCATTTCTTTTAATATTCTATTTTTAT
* *
14407596 TTTGCTATCTCAACTTTTCATATATACTATAATATTATTTACATTGAGTTTTCATTTCATATATG
131 TTTGCTATCTCAACTTTTCATATATA-TATAATATTACTTACATTGAGTTTTCATTTCATATATA
14407661 TTGCCTATTTTGACTAATACAAGTATGTTATTTTAAGTTTTACTTATTTTGATTTCTTTTTTAAT
195 TTGCCTATTTTGACTAATACAAGTATGTTATTTTAAGTTTTACTTATTTTGATTTCTTTTTTAAT
* *
14407726 ACTTACTTTAAAGTTCACTTATGTAGTAATATTTCATGTAATATTCATTTTAATCCTATTCTTAA
260 ACTTACTTTAAAGTTCACTTAGGTAGTAATATTTCATGTAATATTAATTTTAATCCTATTCTTAA
*
14407791 ATGTTGTCAAGTTTTTGCATTAATTATTTCCTTTTAAAATTTCATTCATGTAATTTTTGTGAATA
325 ACGTTGTCAAGTTTTTGCATTAATTATTTCCTTTTAAAATTTCATTCATGTAATTTTTGTGAATA
*
14407856 TGCATTCAAATCTCTTTTTCTCATATTACC-TTTTTGGCGCATTTTTTTTGTGATATTTTTTTTG
390 TGCATTCAAATCTCTTTTTCTCATATTACCTTTTTTGGCGCATTTTATTTGTGATATTTTTTTTG
14407920 TTTC
455 TTTC
* *
14407924 TAGGAAAATATTTTATATAATATAGTACTAATTCATACATATACGTATATATTATATTATTGGTT
1 TAGGAAAACATTTTATATAATATAGTACTAATTCATACATATACGTATATA-T-TACTATTGGTT
*
14407989 TCGAATCA-TTTTTTCACCTATTATATGCATGTATACACTTCATTTCTTTTAATATTCTATTTTT
64 TCGAATCATTTTTTTCACCTATTATATACATGTATACACTTCATTTCTTTTAATATTCTATTTTT
* * *
14408053 ATTTTGCTATCTCAACTTTTCATATAT-TATATTATTACTTATATTGGGTTTTCATTTCATATAT
129 ATTTTGCTATCTCAACTTTTCATATATATATAATATTACTTACATTGAGTTTTCATTTCATATAT
14408117 ATTGCCTATTTTGACTAATACAAGTATGTTATTTTAAGTTTTACTTATTTTGATTTCCTTTTTAT
194 ATTGCCTATTTTGACTAATACAAGTATGTTATTTTAAGTTTTACTTATTTTGATTT-CTTTTT-T
* *
14408182 AATACTTACTTTAAAGTTCATTTAGGTAGTATTATTTCATGTAATATTAATTTTTTAATCCTATT
257 AATACTTACTTTAAAGTTCACTTAGGTAGTAATATTTCATGTAATATTAA--TTTTAATCCTATT
14408247 CTTAAACGTTGTCAAGTTTTTGCATTAATTATTTCCTTTTAAAATTTCATTCATGTAATTTTTGT
320 CTTAAACGTTGTCAAGTTTTTGCATTAATTATTTCCTTTTAAAATTTCATTCATGTAATTTTTGT
*
14408312 GTATATGCATTCAAATCTCTTTTTCTCATATTACCTTTTTTGGCGCATTTTATTTGTG
385 GAATATGCATTCAAATCTCTTTTTCTCATATTACCTTTTTTGGCGCATTTTATTTGTG
14408370 TTAAGTTTTT
Statistics
Matches: 420, Mismatches: 19, Indels: 10
0.94 0.04 0.02
Matches are distributed among these distances:
457 88 0.21
458 54 0.13
459 129 0.31
460 17 0.04
461 111 0.26
462 21 0.05
ACGTcount: A:0.28, C:0.12, G:0.08, T:0.52
Consensus pattern (458 bp):
TAGGAAAACATTTTATATAATATAGTACTAATTCATACATATACGTATATATTACTATTGGTTTC
GAATCATTTTTTTCACCTATTATATACATGTATACACTTCATTTCTTTTAATATTCTATTTTTAT
TTTGCTATCTCAACTTTTCATATATATATAATATTACTTACATTGAGTTTTCATTTCATATATAT
TGCCTATTTTGACTAATACAAGTATGTTATTTTAAGTTTTACTTATTTTGATTTCTTTTTTAATA
CTTACTTTAAAGTTCACTTAGGTAGTAATATTTCATGTAATATTAATTTTAATCCTATTCTTAAA
CGTTGTCAAGTTTTTGCATTAATTATTTCCTTTTAAAATTTCATTCATGTAATTTTTGTGAATAT
GCATTCAAATCTCTTTTTCTCATATTACCTTTTTTGGCGCATTTTATTTGTGATATTTTTTTTGT
TTC
Found at i:14409984 original size:688 final size:688
Alignment explanation
Indices: 14408668--14410028 Score: 2686
Period size: 688 Copynumber: 2.0 Consensus size: 688
14408658 GTGATCCTCG
14408668 AAAAGATTGTGTCCTAACTTACTAGATCCCAATCTTCCTCGGGATCTAAGAAACCAAATGTCCAT
1 AAAAGATTGTGTCCTAACTTACTAGATCCCAATCTTCCTCGGGATCTAAGAAACCAAATGTCCAT
14408733 TTTAATTAACACATAAATAATAAACTCATTCTCGGGAAGTCGATATGTTGTGTCCTAACGTATTT
66 TTTAATTAACACATAAATAATAAACTCATTCTCGGGAAGTCGATATGTTGTGTCCTAACGTATTT
14408798 GATATGACATATCCCTTCCTCGAGACGAGGATTCTTTTAACAAAAAAAATAAAGGCAATATTCGA
131 GATATGACATATCCCTTCCTCGAGACGAGGATTCTTTTAACAAAAAAAATAAAGGCAATATTCGA
14408863 TATTTAGGAAATTTGTGGAATCGAACCCTAACTTACTGGATTTTGATTTTCTCATTTGACCCAAA
196 TATTTAGGAAATTTGTGGAATCGAACCCTAACTTACTGGATTTTGATTTTCTCATTTGACCCAAA
14408928 TAATCAGATATCCTTCTCAAAATGCATAGGTTTTGAAAGTCAAAAGATAAGCTTAATTTTGAGGA
261 TAATCAGATATCCTTCTCAAAATGCATAGGTTTTGAAAGTCAAAAGATAAGCTTAATTTTGAGGA
14408993 TTTGAAATGTTGCACTCTAACTTACTGAGTGTGACAATTTATTTCTTTGAAATAAGTGAGCCTTA
326 TTTGAAATGTTGCACTCTAACTTACTGAGTGTGACAATTTATTTCTTTGAAATAAGTGAGCCTTA
14409058 TCATCCAATTCATTTTATTCAAGATAAAGGGATCGTATTTTAAAATCTTTTTAAAATTTCGGTAT
391 TCATCCAATTCATTTTATTCAAGATAAAGGGATCGTATTTTAAAATCTTTTTAAAATTTCGGTAT
14409123 TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGACGGTGCTAACCCTTCCTCGT
456 TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGACGGTGCTAACCCTTCCTCGT
14409188 GCATAACCGACTCCCGAACCTATTTTCTCAAATTTCGTAGACCAAAATCATTTTAAAGGTGAACC
521 GCATAACCGACTCCCGAACCTATTTTCTCAAATTTCGTAGACCAAAATCATTTTAAAGGTGAACC
*
14409253 GATCACACCTCGTTAAAAGATCGGTGGCGACTCCCCTTTTCATTTTCAAAGTCGATCTCCCTTTT
586 GATCACACCTCGTTAAAAGATCGGTGGCGACTCCCCTTTTCATTTTCAAAGTCGATCCCCCTTTT
14409318 TTCTAATTTAAAAATGGGTTCAATAAAAGCGCTCATTA
651 TTCTAATTTAAAAATGGGTTCAATAAAAGCGCTCATTA
14409356 AAAAGATTGTGTCCTAACTTACTAGATCCCAATCTTCCTCGGGATCTAAGAAACCAAATGTCCAT
1 AAAAGATTGTGTCCTAACTTACTAGATCCCAATCTTCCTCGGGATCTAAGAAACCAAATGTCCAT
14409421 TTTAATTAACACATAAATAATAAACTCATTCTCGGGAAGTCGATATGTTGTGTCCTAACGTATTT
66 TTTAATTAACACATAAATAATAAACTCATTCTCGGGAAGTCGATATGTTGTGTCCTAACGTATTT
14409486 GATATGACATATCCCTTCCTCGAGACGAGGATTCTTTTAACAAAAAAAATAAAGGCAATATTCGA
131 GATATGACATATCCCTTCCTCGAGACGAGGATTCTTTTAACAAAAAAAATAAAGGCAATATTCGA
14409551 TATTTAGGAAATTTGTGGAATCGAACCCTAACTTACTGGATTTTGATTTTCTCATTTGACCCAAA
196 TATTTAGGAAATTTGTGGAATCGAACCCTAACTTACTGGATTTTGATTTTCTCATTTGACCCAAA
14409616 TAATCAGATATCCTTCTCAAAATGCATAGGTTTTGAAAGTCAAAAGATAAGCTTAATTTTGAGGA
261 TAATCAGATATCCTTCTCAAAATGCATAGGTTTTGAAAGTCAAAAGATAAGCTTAATTTTGAGGA
14409681 TTTGAAATGTTGCACTCTAACTTACTGAGTGTGACAATTTATTTCTTTGAAATAAGTGAGCCTTA
326 TTTGAAATGTTGCACTCTAACTTACTGAGTGTGACAATTTATTTCTTTGAAATAAGTGAGCCTTA
14409746 TCATCCAATTCATTTTATTCAAGATAAAGGGATCGTATTTTAAAATCTTTTTAAAATTTCGGTAT
391 TCATCCAATTCATTTTATTCAAGATAAAGGGATCGTATTTTAAAATCTTTTTAAAATTTCGGTAT
14409811 TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGACGGTGCTAACCCTTCCTCGT
456 TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGACGGTGCTAACCCTTCCTCGT
14409876 GCATAACCGACTCCCGAACCTATTTTCTCAAATTTCGTAGACCAAAATCATTTTAAAGGTGAACC
521 GCATAACCGACTCCCGAACCTATTTTCTCAAATTTCGTAGACCAAAATCATTTTAAAGGTGAACC
*
14409941 GATCACACCTCGTTAAAAGATCGGTGGCGACTCCCCTTTTCATTTTGAAAGTCGATCCCCCTTTT
586 GATCACACCTCGTTAAAAGATCGGTGGCGACTCCCCTTTTCATTTTCAAAGTCGATCCCCCTTTT
* *
14410006 TTCTGATTTAAAAATGGTTTCAA
651 TTCTAATTTAAAAATGGGTTCAA
14410029 CAAAGTCATT
Statistics
Matches: 669, Mismatches: 4, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
688 669 1.00
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.34
Consensus pattern (688 bp):
AAAAGATTGTGTCCTAACTTACTAGATCCCAATCTTCCTCGGGATCTAAGAAACCAAATGTCCAT
TTTAATTAACACATAAATAATAAACTCATTCTCGGGAAGTCGATATGTTGTGTCCTAACGTATTT
GATATGACATATCCCTTCCTCGAGACGAGGATTCTTTTAACAAAAAAAATAAAGGCAATATTCGA
TATTTAGGAAATTTGTGGAATCGAACCCTAACTTACTGGATTTTGATTTTCTCATTTGACCCAAA
TAATCAGATATCCTTCTCAAAATGCATAGGTTTTGAAAGTCAAAAGATAAGCTTAATTTTGAGGA
TTTGAAATGTTGCACTCTAACTTACTGAGTGTGACAATTTATTTCTTTGAAATAAGTGAGCCTTA
TCATCCAATTCATTTTATTCAAGATAAAGGGATCGTATTTTAAAATCTTTTTAAAATTTCGGTAT
TAAGACATTAAACAATCAATTCAGTACCAATTTTGGGCGTCACGACGGTGCTAACCCTTCCTCGT
GCATAACCGACTCCCGAACCTATTTTCTCAAATTTCGTAGACCAAAATCATTTTAAAGGTGAACC
GATCACACCTCGTTAAAAGATCGGTGGCGACTCCCCTTTTCATTTTCAAAGTCGATCCCCCTTTT
TTCTAATTTAAAAATGGGTTCAATAAAAGCGCTCATTA
Found at i:14410750 original size:4 final size:4
Alignment explanation
Indices: 14410729--14410796 Score: 57
Period size: 4 Copynumber: 16.0 Consensus size: 4
14410719 TGATTTACCG
* * *
14410729 ATTT AATT AGTTT GTTT ATTT ATCGTT ATTT ATTT CCTTT -TGTT ATTT
1 ATTT ATTT A-TTT ATTT ATTT AT--TT ATTT ATTT -ATTT AT-TT ATTT
14410777 ATTT ATTT ATTT ATTT ATTT
1 ATTT ATTT ATTT ATTT ATTT
14410797 TTATTCCTCT
Statistics
Matches: 53, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
3 1 0.02
4 42 0.79
5 6 0.11
6 4 0.08
ACGTcount: A:0.21, C:0.04, G:0.06, T:0.69
Consensus pattern (4 bp):
ATTT
Found at i:14414305 original size:25 final size:25
Alignment explanation
Indices: 14414277--14414452 Score: 108
Period size: 25 Copynumber: 7.1 Consensus size: 25
14414267 TTCACTTTAC
*
14414277 AGGCTTTCCAAATAACTCACCACAA
1 AGGCTTTCCAAATAATTCACCACAA
* * * *
14414302 AGGCTTCCCAAACAATAT-GCCACAT
1 AGGCTTTCCAAATAAT-TCACCACAA
* *
14414327 AGG-TTCTTCAAATAATTCACCATAA
1 AGGCTT-TCCAAATAATTCACCACAA
* * * *
14414352 AGGCTTTACAGATAATTCACTAGAA
1 AGGCTTTCCAAATAATTCACCACAA
* * * *
14414377 AGGC-TTCCTAAACAATACGCCACAT
1 AGGCTTTCC-AAATAATTCACCACAA
* *
14414402 AGGCTTT-TAAATAATTCGCCACAA
1 AGGCTTTCCAAATAATTCACCACAA
* * * *
14414426 AGGATTTACAAATAACTCGCCACAA
1 AGGCTTTCCAAATAATTCACCACAA
14414451 AG
1 AG
14414453 ATTTAGTTTG
Statistics
Matches: 114, Mismatches: 30, Indels: 14
0.72 0.19 0.09
Matches are distributed among these distances:
24 25 0.22
25 84 0.74
26 5 0.04
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (25 bp):
AGGCTTTCCAAATAATTCACCACAA
Found at i:14414356 original size:75 final size:74
Alignment explanation
Indices: 14414277--14414452 Score: 228
Period size: 75 Copynumber: 2.4 Consensus size: 74
14414267 TTCACTTTAC
* *
14414277 AGGCTTTCCAAATAACTCACCACAAAGGCTTCCCAAACAATATGCCACATAGG-TTCTTCAAATA
1 AGGCTTTACAAATAACTCACCACAAAGGCTTCCCAAACAATACGCCACATAGGCTT-TT-AAATA
*
14414341 ATTCACCATAA
64 ATTCACCACAA
* * * * *
14414352 AGGCTTTACAGATAATTCACTAGAAAGGCTTCCTAAACAATACGCCACATAGGCTTTTAAATAAT
1 AGGCTTTACAAATAACTCACCACAAAGGCTTCCCAAACAATACGCCACATAGGCTTTTAAATAAT
*
14414417 TCGCCACAA
66 TCACCACAA
* *
14414426 AGGATTTACAAATAACTCGCCACAAAG
1 AGGCTTTACAAATAACTCACCACAAAG
14414453 ATTTAGTTTG
Statistics
Matches: 85, Mismatches: 15, Indels: 3
0.83 0.15 0.03
Matches are distributed among these distances:
74 35 0.41
75 48 0.56
76 2 0.02
ACGTcount: A:0.39, C:0.25, G:0.12, T:0.24
Consensus pattern (74 bp):
AGGCTTTACAAATAACTCACCACAAAGGCTTCCCAAACAATACGCCACATAGGCTTTTAAATAAT
TCACCACAA
Found at i:14414421 original size:24 final size:25
Alignment explanation
Indices: 14414385--14414457 Score: 78
Period size: 24 Copynumber: 3.0 Consensus size: 25
14414375 AAAGGCTTCC
* * * *
14414385 TAAACAATACGCCACATAGGCTTT-
1 TAAATAATTCGCCACAAAGGATTTA
14414409 TAAATAATTCGCCACAAAGGATTTA
1 TAAATAATTCGCCACAAAGGATTTA
* *
14414434 CAAATAACTCGCCACAAA-GATTTA
1 TAAATAATTCGCCACAAAGGATTTA
14414458 GTTTGGTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
24 26 0.62
25 16 0.38
ACGTcount: A:0.42, C:0.22, G:0.11, T:0.25
Consensus pattern (25 bp):
TAAATAATTCGCCACAAAGGATTTA
Found at i:14420908 original size:8 final size:8
Alignment explanation
Indices: 14420895--14420919 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14420885 AATATTATGT
14420895 ATGAATTG
1 ATGAATTG
14420903 ATGAATTG
1 ATGAATTG
14420911 ATGAATTG
1 ATGAATTG
14420919 A
1 A
14420920 AAATTAAATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.40, C:0.00, G:0.24, T:0.36
Consensus pattern (8 bp):
ATGAATTG
Done.